[ { "id": "P06634-1.405.405", "start_pos": 405, "end_pos": 405, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A conserved phenylalanine of motif IV in superfamily 2 helicases is required for cooperative, ATP-dependent binding of RNA substrates in DEAD-box proteins.", "journal": "Molecular and cellular biology", "date": "2008-05", "authors": "Banroques Josette, Cordin Olivier, Do\u00e8re Monique, Linder Patrick, Tanner N Kyle", "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "reference": [ { "type": "PubMed", "id": "18332124", "url": "https://glygen.org/publication/PubMed/18332124" } ] } ], "crossref": [ { "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18332124", "url": "https://glygen.org/publication/PubMed/18332124", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "F", "start_aa": "F", "up_seq": "DKKSALLDLLSASTDGLTLI", "down_seq": "VETKRMADQLTDFLIMQNFR", "mutagenesis": [ { "sequence_org": "F", "sequence_mut": "A", "comment": "Strongly reduces ATPase activity and strand displacement activity.", "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "PubMed", "id": "18332124", "url": "https://glygen.org/publication/PubMed/18332124" } ] }, { "sequence_org": "F", "sequence_mut": "L", "comment": "Strongly reduces ATPase activity and strand displacement activity.", "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "PubMed", "id": "18332124", "url": "https://glygen.org/publication/PubMed/18332124" } ] }, { "sequence_org": "F", "sequence_mut": "M", "comment": "Strongly reduces ATPase activity and strand displacement activity.", "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "PubMed", "id": "18332124", "url": "https://glygen.org/publication/PubMed/18332124" } ] }, { "sequence_org": "F", "sequence_mut": "W", "comment": "Strongly reduces ATPase activity and strand displacement activity.", "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "PubMed", "id": "18332124", "url": "https://glygen.org/publication/PubMed/18332124" } ] }, { "sequence_org": "F", "sequence_mut": "Y", "comment": "Strongly reduces ATPase activity and strand displacement activity.", "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "PubMed", "id": "18332124", "url": "https://glygen.org/publication/PubMed/18332124" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "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": "P06634-1.486.486", "start_pos": 486, "end_pos": 486, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A conserved phenylalanine of motif IV in superfamily 2 helicases is required for cooperative, ATP-dependent binding of RNA substrates in DEAD-box proteins.", "journal": "Molecular and cellular biology", "date": "2008-05", "authors": "Banroques Josette, Cordin Olivier, Do\u00e8re Monique, Linder Patrick, Tanner N Kyle", "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "reference": [ { "type": "PubMed", "id": "18332124", "url": "https://glygen.org/publication/PubMed/18332124" } ] } ], "crossref": [ { "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18332124", "url": "https://glygen.org/publication/PubMed/18332124", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "PNVTHVINYDLPSDVDDYVH", "down_seq": "IGRTGRAGNTGLATAFFNSE", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "A", "comment": "Reduces ATPase activity.", "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "PubMed", "id": "18332124", "url": "https://glygen.org/publication/PubMed/18332124" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "upstream", "id": "P06634-1.494.494", "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": "P06634-1.494.494", "start_pos": 494, "end_pos": 494, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Requirement of the DEAD-Box protein ded1p for messenger RNA translation.", "journal": "Science (New York, N.Y.)", "date": "1997", "authors": "Chuang RY, Weaver PL, Liu Z, Chang TH", "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "reference": [ { "type": "PubMed", "id": "9045610", "url": "https://glygen.org/publication/PubMed/9045610" } ] } ], "crossref": [ { "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "9045610", "url": "https://glygen.org/publication/PubMed/9045610", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "G", "start_aa": "G", "up_seq": "YDLPSDVDDYVHRIGRTGRA", "down_seq": "NTGLATAFFNSENSNIVKGL", "mutagenesis": [ { "sequence_org": "G", "sequence_mut": "D", "comment": "In DED1-120; impairs protein synthesis at 15 degrees Celsius; when associated with D-108.", "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "PubMed", "id": "9045610", "url": "https://glygen.org/publication/PubMed/9045610" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P06634-1.486.486", "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": "P06634-1.146.146", "start_pos": 146, "end_pos": 146, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634", "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": "DDIPVDASGKDVPEPITEFT", "down_seq": "PPLDGLLLENIKLARFTKPT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser146" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P06634-1.144.144", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P06634-1.162.162", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P06634-1.166.166", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06634-1.193.193", "start_pos": 193, "end_pos": 193, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634", "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": "VPIVANGRDLMACAQTGSGK", "down_seq": "GGFLFPVLSESFKTGPSPQP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr193" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P06634-1.192.192", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P06634-1.207.207", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P06634-1.210.210", "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": "P06634-1.207.207", "start_pos": 207, "end_pos": 207, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730", "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": "QTGSGKTGGFLFPVLSESFK", "down_seq": "GPSPQPESQGSFYQRKAYPT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr207" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P06634-1.192.192", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P06634-1.193.193", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P06634-1.210.210", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P06634-1.215.215", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P06634-1.218.218", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P06634-1.210.210", "start_pos": 210, "end_pos": 210, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "common_name": "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": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730", "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": "SGKTGGFLFPVLSESFKTGP", "down_seq": "PQPESQGSFYQRKAYPTAVI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730" }, { "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": "Ser210" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P06634-1.192.192", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P06634-1.193.193", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P06634-1.207.207", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P06634-1.215.215", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P06634-1.218.218", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P06634-1.215.215", "start_pos": 215, "end_pos": 215, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730", "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": "GFLFPVLSESFKTGPSPQPE", "down_seq": "QGSFYQRKAYPTAVIMAPTR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" }, { "database": "SGD", "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser215" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P06634-1.207.207", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P06634-1.210.210", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P06634-1.218.218", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P06634-1.218.218", "start_pos": 218, "end_pos": 218, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "The Yeast DNA Damage Checkpoint Kinase Rad53 Targets the Exoribonuclease, Xrn1.", "journal": "G3 (Bethesda, Md.)", "date": "2018-12-10", "authors": "Lao Jessica P, Ulrich Katie M, Johnson Jeffrey R, Newton Billy W, Vashisht Ajay A, Wohlschlegel James A, Krogan Nevan J, Toczyski David P", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "30377154", "url": "https://glygen.org/publication/PubMed/30377154" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "30377154", "url": "https://glygen.org/publication/PubMed/30377154", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FPVLSESFKTGPSPQPESQG", "down_seq": "FYQRKAYPTAVIMAPTRELA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" }, { "database": "SGD", "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730" }, { "database": "PubMed", "id": "30377154", "url": "https://glygen.org/publication/PubMed/30377154" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser218" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P06634-1.207.207", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P06634-1.210.210", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P06634-1.215.215", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P06634-1.237.237", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06634-1.263.263", "start_pos": 263, "end_pos": 263, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634", "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730", "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": "DEAKKFTYRSWVKACVVYGG", "down_seq": "PIGNQLREIERGCDLLVATP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser263" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "upstream", "id": "P06634-1.282.282", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06634-1.282.282", "start_pos": 282, "end_pos": 282, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634", "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": "GSPIGNQLREIERGCDLLVA", "down_seq": "PGRLNDLLERGKISLANVKY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr282" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P06634-1.263.263", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P06634-1.296.296", "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": "P06634-1.296.296", "start_pos": 296, "end_pos": 296, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634", "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": "CDLLVATPGRLNDLLERGKI", "down_seq": "LANVKYLVLDEADRMLDMGF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser296" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P06634-1.282.282", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P06634-1.307.307", "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": "P06634-1.369.369", "start_pos": 369, "end_pos": 369, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634", "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": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730", "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": "QHLARDFLSDYIFLSVGRVG", "down_seq": "TSENITQKVLYVENQDKKSA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" }, { "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": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser369" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P06634-1.368.368", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P06634-1.370.370", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06634-1.371.371", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06634-1.370.370", "start_pos": 370, "end_pos": 370, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634", "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": "HLARDFLSDYIFLSVGRVGS", "down_seq": "SENITQKVLYVENQDKKSAL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr370" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P06634-1.368.368", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P06634-1.369.369", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P06634-1.371.371", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06634-1.371.371", "start_pos": 371, "end_pos": 371, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634", "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": "LARDFLSDYIFLSVGRVGST", "down_seq": "ENITQKVLYVENQDKKSALL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser371" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P06634-1.368.368", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06634-1.369.369", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P06634-1.370.370", "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": "P06634-1.37.37", "start_pos": 37, "end_pos": 37, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634", "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" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NENGYVPPHLRGKPRSARNN", "down_seq": "SNYNNNNGGYNGGRGGGSFF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" }, { "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" } ], "site_lbl": "Ser37" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P06634-1.38.38", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P06634-1.55.55", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06634-1.38.38", "start_pos": 38, "end_pos": 38, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] } ], "crossref": [ { "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634", "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": "ENGYVPPHLRGKPRSARNNS", "down_seq": "NYNNNNGGYNGGRGGGSFFS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ], "site_lbl": "Ser38" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P06634-1.37.37", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P06634-1.55.55", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P06634-1.58.58", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06634-1.436.436", "start_pos": 436, "end_pos": 436, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TDFLIMQNFRATAIHGDRTQ", "down_seq": "ERERALAAFRSGAATLLVAT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser436" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "upstream", "id": "P06634-1.451.451", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P06634-1.456.456", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06634-1.451.451", "start_pos": 451, "end_pos": 451, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "GDRTQSERERALAAFRSGAA", "down_seq": "LLVATAVAARGLDIPNVTHV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730" } ], "site_lbl": "Thr451" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P06634-1.436.436", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P06634-1.456.456", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06634-1.456.456", "start_pos": 456, "end_pos": 456, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SERERALAAFRSGAATLLVA", "down_seq": "AVAARGLDIPNVTHVINYDL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730" } ], "site_lbl": "Thr456" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P06634-1.436.436", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P06634-1.451.451", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06634-1.535.535", "start_pos": 535, "end_pos": 535, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "common_name": "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": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "The DEAD-box RNA helicase Ded1 has a role in the translational response to TORC1 inhibition.", "journal": "Molecular biology of the cell", "date": "2019-08-01", "authors": "Aryanpur Peyman P, Renner David M, Rodela Emily, Mittelmeier Telsa M, Byrd Aaron, Bolger Timothy A", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "31141444", "url": "https://glygen.org/publication/PubMed/31141444" } ] }, { "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634", "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "31141444", "url": "https://glygen.org/publication/PubMed/31141444", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730", "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": "HEILTEANQEVPSFLKDAMM", "down_seq": "APGSRSNSRRGGFGRNNNRD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "PubMed", "id": "31141444", "url": "https://glygen.org/publication/PubMed/31141444" }, { "database": "SGD", "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730" }, { "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": "Ser535" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P06634-1.539.539", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P06634-1.541.541", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P06634-1.543.543", "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": 15 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06634-1.539.539", "start_pos": 539, "end_pos": 539, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "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": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Discovery of Arginine Methylation, Phosphorylation, and Their Co-occurrence in Condensate-Associated Proteins in Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2021-05-07", "authors": "Hamey Joshua J, Nguyen Amy, Wilkins Marc R", "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33856219", "url": "https://glygen.org/publication/PubMed/33856219" } ] }, { "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "The DEAD-box RNA helicase Ded1 has a role in the translational response to TORC1 inhibition.", "journal": "Molecular biology of the cell", "date": "2019-08-01", "authors": "Aryanpur Peyman P, Renner David M, Rodela Emily, Mittelmeier Telsa M, Byrd Aaron, Bolger Timothy A", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "31141444", "url": "https://glygen.org/publication/PubMed/31141444" } ] }, { "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634", "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": "33856219", "url": "https://glygen.org/publication/PubMed/33856219", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "31141444", "url": "https://glygen.org/publication/PubMed/31141444", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TEANQEVPSFLKDAMMSAPG", "down_seq": "RSNSRRGGFGRNNNRDYRKA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "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": "PubMed", "id": "33856219", "url": "https://glygen.org/publication/PubMed/33856219" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" }, { "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": "PubMed", "id": "31141444", "url": "https://glygen.org/publication/PubMed/31141444" }, { "database": "SGD", "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser539" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P06634-1.535.535", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06634-1.541.541", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P06634-1.543.543", "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": 16 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06634-1.541.541", "start_pos": 541, "end_pos": 541, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "The DEAD-box RNA helicase Ded1 has a role in the translational response to TORC1 inhibition.", "journal": "Molecular biology of the cell", "date": "2019-08-01", "authors": "Aryanpur Peyman P, Renner David M, Rodela Emily, Mittelmeier Telsa M, Byrd Aaron, Bolger Timothy A", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "31141444", "url": "https://glygen.org/publication/PubMed/31141444" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634", "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": "31141444", "url": "https://glygen.org/publication/PubMed/31141444", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730", "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": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ANQEVPSFLKDAMMSAPGSR", "down_seq": "NSRRGGFGRNNNRDYRKAGG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "PubMed", "id": "31141444", "url": "https://glygen.org/publication/PubMed/31141444" }, { "database": "SGD", "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730" }, { "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": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser541" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P06634-1.535.535", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06634-1.539.539", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06634-1.543.543", "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": 10 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06634-1.543.543", "start_pos": 543, "end_pos": 543, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "common_name": "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": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "Discovery of Arginine Methylation, Phosphorylation, and Their Co-occurrence in Condensate-Associated Proteins in Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2021-05-07", "authors": "Hamey Joshua J, Nguyen Amy, Wilkins Marc R", "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33856219", "url": "https://glygen.org/publication/PubMed/33856219" } ] }, { "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "The DEAD-box RNA helicase Ded1 has a role in the translational response to TORC1 inhibition.", "journal": "Molecular biology of the cell", "date": "2019-08-01", "authors": "Aryanpur Peyman P, Renner David M, Rodela Emily, Mittelmeier Telsa M, Byrd Aaron, Bolger Timothy A", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "31141444", "url": "https://glygen.org/publication/PubMed/31141444" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634", "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": "33856219", "url": "https://glygen.org/publication/PubMed/33856219", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634", "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": "31141444", "url": "https://glygen.org/publication/PubMed/31141444", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730", "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": "QEVPSFLKDAMMSAPGSRSN", "down_seq": "RRGGFGRNNNRDYRKAGGAS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "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": "33856219", "url": "https://glygen.org/publication/PubMed/33856219" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "PubMed", "id": "31141444", "url": "https://glygen.org/publication/PubMed/31141444" }, { "database": "SGD", "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730" }, { "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": "Ser543" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P06634-1.535.535", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P06634-1.539.539", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06634-1.541.541", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P06634-1.563.563", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 11 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06634-1.55.55", "start_pos": 55, "end_pos": 55, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730", "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" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NNSSNYNNNNGGYNGGRGGG", "down_seq": "FFSNNRRGGYGNGGFFGGNN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser55" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P06634-1.37.37", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P06634-1.38.38", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P06634-1.58.58", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06634-1.563.563", "start_pos": 563, "end_pos": 563, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634", "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": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730", "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": "SRRGGFGRNNNRDYRKAGGA", "down_seq": "AGGWGSSRSRDNSFRGGSGW", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" }, { "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": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser563" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P06634-1.543.543", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P06634-1.569.569", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P06634-1.570.570", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P06634-1.572.572", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P06634-1.576.576", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P06634-1.581.581", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06634-1.569.569", "start_pos": 569, "end_pos": 569, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634", "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": "GRNNNRDYRKAGGASAGGWG", "down_seq": "SRSRDNSFRGGSGWGSDSKS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser569" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P06634-1.563.563", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P06634-1.570.570", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P06634-1.572.572", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P06634-1.576.576", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P06634-1.581.581", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P06634-1.585.585", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P06634-1.587.587", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06634-1.570.570", "start_pos": 570, "end_pos": 570, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730", "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": "RNNNRDYRKAGGASAGGWGS", "down_seq": "RSRDNSFRGGSGWGSDSKSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser570" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P06634-1.563.563", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P06634-1.569.569", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06634-1.572.572", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P06634-1.576.576", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P06634-1.581.581", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P06634-1.585.585", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P06634-1.587.587", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06634-1.572.572", "start_pos": 572, "end_pos": 572, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "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": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634", "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": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NNRDYRKAGGASAGGWGSSR", "down_seq": "RDNSFRGGSGWGSDSKSSGW", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" }, { "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": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730" }, { "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": "Ser572" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P06634-1.563.563", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P06634-1.569.569", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06634-1.570.570", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P06634-1.576.576", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P06634-1.581.581", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P06634-1.585.585", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P06634-1.587.587", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06634-1.576.576", "start_pos": 576, "end_pos": 576, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "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": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ] } ], "crossref": [ { "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730", "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" ] }, { "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YRKAGGASAGGWGSSRSRDN", "down_seq": "FRGGSGWGSDSKSSGWGNSG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730" }, { "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" }, { "database": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ], "site_lbl": "Ser576" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P06634-1.563.563", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P06634-1.569.569", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P06634-1.570.570", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P06634-1.572.572", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P06634-1.581.581", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P06634-1.585.585", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P06634-1.587.587", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 10 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06634-1.581.581", "start_pos": 581, "end_pos": 581, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] } ], "crossref": [ { "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634", "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": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GASAGGWGSSRSRDNSFRGG", "down_seq": "GWGSDSKSSGWGNSGGSNNS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" }, { "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": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ], "site_lbl": "Ser581" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P06634-1.563.563", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P06634-1.569.569", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P06634-1.570.570", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P06634-1.572.572", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P06634-1.576.576", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P06634-1.585.585", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P06634-1.587.587", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P06634-1.598.598", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P06634-1.585.585", "start_pos": 585, "end_pos": 585, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730", "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": "GGWGSSRSRDNSFRGGSGWG", "down_seq": "DSKSSGWGNSGGSNNSSWW", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730" }, { "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": "Ser585" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P06634-1.569.569", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P06634-1.570.570", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P06634-1.572.572", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P06634-1.576.576", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P06634-1.581.581", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06634-1.587.587", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P06634-1.598.598", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P06634-1.587.587", "start_pos": 587, "end_pos": 587, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634", "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": "WGSSRSRDNSFRGGSGWGSD", "down_seq": "KSSGWGNSGGSNNSSWW", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser587" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P06634-1.569.569", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P06634-1.570.570", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P06634-1.572.572", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P06634-1.576.576", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P06634-1.581.581", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06634-1.585.585", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P06634-1.598.598", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06634-1.58.58", "start_pos": 58, "end_pos": 58, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634", "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": "SNYNNNNGGYNGGRGGGSFF", "down_seq": "NNRRGGYGNGGFFGGNNGGS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser58" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P06634-1.38.38", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P06634-1.55.55", "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": "P06634-1.598.598", "start_pos": 598, "end_pos": 598, "uniprot_canonical_ac": "P06634-1", "length": 604, "uniprot_id": "DED1_YEAST", "protein_name": "ATP-dependent RNA helicase DED1", "refseq_ac": "NP_014847", "refseq_name": "DEAD-box ATP-dependent RNA helicase DED1", "gene_name": "DED1", "gene_names_uniprotkb": "DED1; SPP81", "gene_names_refseq": "DED1; SPP81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "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": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634", "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": "RGGSGWGSDSKSSGWGNSGG", "down_seq": "NNSSWW", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P06634", "url": "https://www.uniprot.org/uniprotkb/P06634" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005730", "url": "https://www.yeastgenome.org/locus/S000005730" }, { "database": "iPTMnet", "id": "P06634", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06634" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser598" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "494", "end_pos": "494" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "598", "end_pos": "598" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P06634-1.581.581", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P06634-1.585.585", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P06634-1.587.587", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06700-1.139.139", "start_pos": 139, "end_pos": 139, "uniprot_canonical_ac": "P06700-1", "length": 562, "uniprot_id": "SIR2_YEAST", "protein_name": "NAD-dependent histone deacetylase SIR2", "refseq_ac": "NP_010242", "refseq_name": "NAD-dependent histone deacetylase SIR2", "gene_name": "SIR2", "gene_names_uniprotkb": "SIR2; D2714; MAR1", "gene_names_refseq": "MAR1; SIR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06700", "url": "https://www.uniprot.org/uniprotkb/P06700" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A unique class of conditional sir2 mutants displays distinct silencing defects in Saccharomyces cerevisiae.", "journal": "Genetics", "date": "2002-10", "authors": "Garcia Sandra N, Pillus Lorraine", "evidence": [ { "database": "UniProtKB", "id": "P06700", "url": "https://www.uniprot.org/uniprotkb/P06700" } ], "reference": [ { "type": "PubMed", "id": "12399383", "url": "https://glygen.org/publication/PubMed/12399383" } ] } ], "crossref": [ { "id": "P06700", "url": "https://www.uniprot.org/uniprotkb/P06700", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "12399383", "url": "https://glygen.org/publication/PubMed/12399383", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "NPSNGIFYGPSFTKRESLNA", "down_seq": "MFLKYYGAHKFLDTYLPEDL", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "K", "comment": "Defects in telomeric silencing.", "evidence": [ { "database": "UniProtKB", "id": "P06700", "url": "https://www.uniprot.org/uniprotkb/P06700" }, { "database": "PubMed", "id": "12399383", "url": "https://glygen.org/publication/PubMed/12399383" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "139", "end_pos": "139" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "296", "end_pos": "296" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "561", "end_pos": "561" } ] } ], "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": "P06700-1.270.270", "start_pos": 270, "end_pos": 270, "uniprot_canonical_ac": "P06700-1", "length": 562, "uniprot_id": "SIR2_YEAST", "protein_name": "NAD-dependent histone deacetylase SIR2", "refseq_ac": "NP_010242", "refseq_name": "NAD-dependent histone deacetylase SIR2", "gene_name": "SIR2", "gene_names_uniprotkb": "SIR2; D2714; MAR1", "gene_names_refseq": "MAR1; SIR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06700", "url": "https://www.uniprot.org/uniprotkb/P06700" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A unique class of conditional sir2 mutants displays distinct silencing defects in Saccharomyces cerevisiae.", "journal": "Genetics", "date": "2002-10", "authors": "Garcia Sandra N, Pillus Lorraine", "evidence": [ { "database": "UniProtKB", "id": "P06700", "url": "https://www.uniprot.org/uniprotkb/P06700" } ], "reference": [ { "type": "PubMed", "id": "12399383", "url": "https://glygen.org/publication/PubMed/12399383" } ] } ], "crossref": [ { "id": "P06700", "url": "https://www.uniprot.org/uniprotkb/P06700", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "12399383", "url": "https://glygen.org/publication/PubMed/12399383", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "G", "start_aa": "G", "up_seq": "KLHTARKILVLTGAGVSTSL", "down_seq": "IPDFRSSEGFYSKIKHLGLD", "mutagenesis": [ { "sequence_org": "G", "sequence_mut": "E", "comment": "Defects in telomeric silencing.", "evidence": [ { "database": "UniProtKB", "id": "P06700", "url": "https://www.uniprot.org/uniprotkb/P06700" }, { "database": "PubMed", "id": "12399383", "url": "https://glygen.org/publication/PubMed/12399383" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "139", "end_pos": "139" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "296", "end_pos": "296" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "561", "end_pos": "561" } ] } ], "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": "P06700-1.296.296", "start_pos": 296, "end_pos": 296, "uniprot_canonical_ac": "P06700-1", "length": 562, "uniprot_id": "SIR2_YEAST", "protein_name": "NAD-dependent histone deacetylase SIR2", "refseq_ac": "NP_010242", "refseq_name": "NAD-dependent histone deacetylase SIR2", "gene_name": "SIR2", "gene_names_uniprotkb": "SIR2; D2714; MAR1", "gene_names_refseq": "MAR1; SIR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06700", "url": "https://www.uniprot.org/uniprotkb/P06700" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A unique class of conditional sir2 mutants displays distinct silencing defects in Saccharomyces cerevisiae.", "journal": "Genetics", "date": "2002-10", "authors": "Garcia Sandra N, Pillus Lorraine", "evidence": [ { "database": "UniProtKB", "id": "P06700", "url": "https://www.uniprot.org/uniprotkb/P06700" } ], "reference": [ { "type": "PubMed", "id": "12399383", "url": "https://glygen.org/publication/PubMed/12399383" } ] } ], "crossref": [ { "id": "P06700", "url": "https://www.uniprot.org/uniprotkb/P06700", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "12399383", "url": "https://glygen.org/publication/PubMed/12399383", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "F", "start_aa": "F", "up_seq": "SSEGFYSKIKHLGLDDPQDV", "down_seq": "NYNIFMHDPSVFYNIANMVL", "mutagenesis": [ { "sequence_org": "F", "sequence_mut": "L", "comment": "Defects in telomeric silencing.", "evidence": [ { "database": "UniProtKB", "id": "P06700", "url": "https://www.uniprot.org/uniprotkb/P06700" }, { "database": "PubMed", "id": "12399383", "url": "https://glygen.org/publication/PubMed/12399383" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "139", "end_pos": "139" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "296", "end_pos": "296" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "561", "end_pos": "561" } ] } ], "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": "P06700-1.109.109", "start_pos": 109, "end_pos": 109, "uniprot_canonical_ac": "P06700-1", "length": 562, "uniprot_id": "SIR2_YEAST", "protein_name": "NAD-dependent histone deacetylase SIR2", "refseq_ac": "NP_010242", "refseq_name": "NAD-dependent histone deacetylase SIR2", "gene_name": "SIR2", "gene_names_uniprotkb": "SIR2; D2714; MAR1", "gene_names_refseq": "MAR1; SIR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06700", "url": "https://www.uniprot.org/uniprotkb/P06700" } ], "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": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700", "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": "PLAVSAASVVSMSNDVLKPE", "down_seq": "PKGPIIISKNPSNGIFYGPS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Thr109" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "139", "end_pos": "139" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "296", "end_pos": "296" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "561", "end_pos": "561" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06700-1.192.192", "start_pos": 192, "end_pos": 192, "uniprot_canonical_ac": "P06700-1", "length": 562, "uniprot_id": "SIR2_YEAST", "protein_name": "NAD-dependent histone deacetylase SIR2", "refseq_ac": "NP_010242", "refseq_name": "NAD-dependent histone deacetylase SIR2", "gene_name": "SIR2", "gene_names_uniprotkb": "SIR2; D2714; MAR1", "gene_names_refseq": "MAR1; SIR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06700", "url": "https://www.uniprot.org/uniprotkb/P06700" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002200", "url": "https://www.yeastgenome.org/locus/S000002200", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GFEVKDQALIGTINSIVHIN", "down_seq": "QERVQDLGSAISVTNVEDPL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002200", "url": "https://www.yeastgenome.org/locus/S000002200" }, { "database": "iPTMnet", "id": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser192" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "139", "end_pos": "139" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "296", "end_pos": "296" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "561", "end_pos": "561" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "upstream", "id": "P06700-1.204.204", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06700-1.19.19", "start_pos": 19, "end_pos": 19, "uniprot_canonical_ac": "P06700-1", "length": 562, "uniprot_id": "SIR2_YEAST", "protein_name": "NAD-dependent histone deacetylase SIR2", "refseq_ac": "NP_010242", "refseq_name": "NAD-dependent histone deacetylase SIR2", "gene_name": "SIR2", "gene_names_uniprotkb": "SIR2; D2714; MAR1", "gene_names_refseq": "MAR1; SIR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06700", "url": "https://www.uniprot.org/uniprotkb/P06700" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002200", "url": "https://www.yeastgenome.org/locus/S000002200", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700", "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": "MTIPHMKYAVSKTSENKV", "down_seq": "NTVSPTQDKDAIRKQPDDII", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002200", "url": "https://www.yeastgenome.org/locus/S000002200" }, { "database": "iPTMnet", "id": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser19" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "139", "end_pos": "139" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "296", "end_pos": "296" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "561", "end_pos": "561" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P06700-1.23.23", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P06700-1.25.25", "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": "P06700-1.204.204", "start_pos": 204, "end_pos": 204, "uniprot_canonical_ac": "P06700-1", "length": 562, "uniprot_id": "SIR2_YEAST", "protein_name": "NAD-dependent histone deacetylase SIR2", "refseq_ac": "NP_010242", "refseq_name": "NAD-dependent histone deacetylase SIR2", "gene_name": "SIR2", "gene_names_uniprotkb": "SIR2; D2714; MAR1", "gene_names_refseq": "MAR1; SIR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06700", "url": "https://www.uniprot.org/uniprotkb/P06700" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002200", "url": "https://www.yeastgenome.org/locus/S000002200", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700", "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": "INSIVHINSQERVQDLGSAI", "down_seq": "VTNVEDPLAKKQTVRLIKDL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002200", "url": "https://www.yeastgenome.org/locus/S000002200" }, { "database": "iPTMnet", "id": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser204" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "139", "end_pos": "139" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "296", "end_pos": "296" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "561", "end_pos": "561" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P06700-1.192.192", "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": "P06700-1.23.23", "start_pos": 23, "end_pos": 23, "uniprot_canonical_ac": "P06700-1", "length": 562, "uniprot_id": "SIR2_YEAST", "protein_name": "NAD-dependent histone deacetylase SIR2", "refseq_ac": "NP_010242", "refseq_name": "NAD-dependent histone deacetylase SIR2", "gene_name": "SIR2", "gene_names_uniprotkb": "SIR2; D2714; MAR1", "gene_names_refseq": "MAR1; SIR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06700", "url": "https://www.uniprot.org/uniprotkb/P06700" } ], "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": "P06700", "url": "https://www.uniprot.org/uniprotkb/P06700" }, { "database": "iPTMnet", "id": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700" } ], "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": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science", "date": "2009", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06700", "url": "https://www.uniprot.org/uniprotkb/P06700" }, { "database": "iPTMnet", "id": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700" } ], "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": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700" } ], "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": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700" } ], "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": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700" } ], "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": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "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": "P06700", "url": "https://www.uniprot.org/uniprotkb/P06700" }, { "database": "iPTMnet", "id": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700" } ], "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": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700" } ], "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": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700" } ], "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": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "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": "S000002200", "url": "https://www.yeastgenome.org/locus/S000002200", "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": "IPHMKYAVSKTSENKVSNTV", "down_seq": "PTQDKDAIRKQPDDIINNDE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000002200", "url": "https://www.yeastgenome.org/locus/S000002200" }, { "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": "Ser23" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "139", "end_pos": "139" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "296", "end_pos": "296" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "561", "end_pos": "561" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P06700-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06700-1.25.25", "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": 12 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06700-1.25.25", "start_pos": 25, "end_pos": 25, "uniprot_canonical_ac": "P06700-1", "length": 562, "uniprot_id": "SIR2_YEAST", "protein_name": "NAD-dependent histone deacetylase SIR2", "refseq_ac": "NP_010242", "refseq_name": "NAD-dependent histone deacetylase SIR2", "gene_name": "SIR2", "gene_names_uniprotkb": "SIR2; D2714; MAR1", "gene_names_refseq": "MAR1; SIR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06700", "url": "https://www.uniprot.org/uniprotkb/P06700" } ], "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": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700" } ], "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": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700" } ], "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": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700", "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": "S000002200", "url": "https://www.yeastgenome.org/locus/S000002200", "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": "HMKYAVSKTSENKVSNTVSP", "down_seq": "QDKDAIRKQPDDIINNDEPS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700" }, { "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": "S000002200", "url": "https://www.yeastgenome.org/locus/S000002200" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr25" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "139", "end_pos": "139" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "296", "end_pos": "296" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "561", "end_pos": "561" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P06700-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06700-1.23.23", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06700-1.400.400", "start_pos": 400, "end_pos": 400, "uniprot_canonical_ac": "P06700-1", "length": 562, "uniprot_id": "SIR2_YEAST", "protein_name": "NAD-dependent histone deacetylase SIR2", "refseq_ac": "NP_010242", "refseq_name": "NAD-dependent histone deacetylase SIR2", "gene_name": "SIR2", "gene_names_uniprotkb": "SIR2; D2714; MAR1", "gene_names_refseq": "MAR1; SIR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06700", "url": "https://www.uniprot.org/uniprotkb/P06700" } ], "common_name": "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": "P06700", "url": "https://www.uniprot.org/uniprotkb/P06700" }, { "database": "iPTMnet", "id": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002200", "url": "https://www.yeastgenome.org/locus/S000002200", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "PGERIFNKIRNLELPLCPYC", "down_seq": "KKRREYFPEGYNNKVGVAAS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000002200", "url": "https://www.yeastgenome.org/locus/S000002200" } ], "site_lbl": "Tyr400" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "139", "end_pos": "139" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "296", "end_pos": "296" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "561", "end_pos": "561" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "upstream", "id": "P06700-1.420.420", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06700-1.420.420", "start_pos": 420, "end_pos": 420, "uniprot_canonical_ac": "P06700-1", "length": 562, "uniprot_id": "SIR2_YEAST", "protein_name": "NAD-dependent histone deacetylase SIR2", "refseq_ac": "NP_010242", "refseq_name": "NAD-dependent histone deacetylase SIR2", "gene_name": "SIR2", "gene_names_uniprotkb": "SIR2; D2714; MAR1", "gene_names_refseq": "MAR1; SIR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06700", "url": "https://www.uniprot.org/uniprotkb/P06700" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002200", "url": "https://www.yeastgenome.org/locus/S000002200", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YKKRREYFPEGYNNKVGVAA", "down_seq": "QGSMSERPPYILNSYGVLKP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002200", "url": "https://www.yeastgenome.org/locus/S000002200" }, { "database": "iPTMnet", "id": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser420" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "139", "end_pos": "139" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "296", "end_pos": "296" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "561", "end_pos": "561" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P06700-1.400.400", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06700-1.561.561", "start_pos": 561, "end_pos": 561, "uniprot_canonical_ac": "P06700-1", "length": 562, "uniprot_id": "SIR2_YEAST", "protein_name": "NAD-dependent histone deacetylase SIR2", "refseq_ac": "NP_010242", "refseq_name": "NAD-dependent histone deacetylase SIR2", "gene_name": "SIR2", "gene_names_uniprotkb": "SIR2; D2714; MAR1", "gene_names_refseq": "MAR1; SIR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06700", "url": "https://www.uniprot.org/uniprotkb/P06700" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002200", "url": "https://www.yeastgenome.org/locus/S000002200", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700", "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": "FKCQEKDKGVYVVTSDEHPK", "down_seq": "", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002200", "url": "https://www.yeastgenome.org/locus/S000002200" }, { "database": "iPTMnet", "id": "P06700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06700" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr561" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "139", "end_pos": "139" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "296", "end_pos": "296" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "561", "end_pos": "561" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06701-1.402.402", "start_pos": 402, "end_pos": 402, "uniprot_canonical_ac": "P06701-1", "length": 978, "uniprot_id": "SIR3_YEAST", "protein_name": "Regulatory protein SIR3", "refseq_ac": "NP_013547", "refseq_name": "chromatin-silencing protein SIR3", "gene_name": "SIR3", "gene_names_uniprotkb": "SIR3; CMT1; L9753.10; MAR2; STE8", "gene_names_refseq": "CMT1; MAR2; SIR3; STE8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06701", "url": "https://www.uniprot.org/uniprotkb/P06701" } ], "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": "P06701", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P06701" }, { "database": "O-GlcNAc Atlas", "id": "P06701", "url": "https://oglcnac.org/atlas/detail/P06701" } ], "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": "P06701", "url": "https://oglcnac.org/atlas/detail/P06701", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SSESSDEAIIPVNKRRGAHG", "down_seq": "ELSSKIRKIHIQETQEFSKN", "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": "Ser402", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P06701", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P06701" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "402", "end_pos": "402" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "454", "end_pos": "454" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "2", "end_pos": "2" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "831", "end_pos": "831" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P06701-1.405.405", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P06701-1.406.406", "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": "P06701-1.405.405", "start_pos": 405, "end_pos": 405, "uniprot_canonical_ac": "P06701-1", "length": 978, "uniprot_id": "SIR3_YEAST", "protein_name": "Regulatory protein SIR3", "refseq_ac": "NP_013547", "refseq_name": "chromatin-silencing protein SIR3", "gene_name": "SIR3", "gene_names_uniprotkb": "SIR3; CMT1; L9753.10; MAR2; STE8", "gene_names_refseq": "CMT1; MAR2; SIR3; STE8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06701", "url": "https://www.uniprot.org/uniprotkb/P06701" } ], "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": "P06701", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P06701" }, { "database": "O-GlcNAc Atlas", "id": "P06701", "url": "https://oglcnac.org/atlas/detail/P06701" } ], "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": "P06701", "url": "https://oglcnac.org/atlas/detail/P06701", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SSDEAIIPVNKRRGAHGSEL", "down_seq": "SKIRKIHIQETQEFSKNYTT", "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": "Ser405", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P06701", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P06701" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "402", "end_pos": "402" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "454", "end_pos": "454" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "2", "end_pos": "2" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "831", "end_pos": "831" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P06701-1.402.402", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P06701-1.406.406", "categories": [ "glycosylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P06701-1.425.425", "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": "P06701-1.406.406", "start_pos": 406, "end_pos": 406, "uniprot_canonical_ac": "P06701-1", "length": 978, "uniprot_id": "SIR3_YEAST", "protein_name": "Regulatory protein SIR3", "refseq_ac": "NP_013547", "refseq_name": "chromatin-silencing protein SIR3", "gene_name": "SIR3", "gene_names_uniprotkb": "SIR3; CMT1; L9753.10; MAR2; STE8", "gene_names_refseq": "CMT1; MAR2; SIR3; STE8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06701", "url": "https://www.uniprot.org/uniprotkb/P06701" } ], "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": "P06701", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P06701" }, { "database": "O-GlcNAc Atlas", "id": "P06701", "url": "https://oglcnac.org/atlas/detail/P06701" } ], "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": "P06701", "url": "https://oglcnac.org/atlas/detail/P06701", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SDEAIIPVNKRRGAHGSELS", "down_seq": "KIRKIHIQETQEFSKNYTTE", "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": "Ser406", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P06701", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P06701" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "402", "end_pos": "402" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "454", "end_pos": "454" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "2", "end_pos": "2" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "831", "end_pos": "831" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P06701-1.402.402", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P06701-1.405.405", "categories": [ "glycosylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P06701-1.425.425", "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": "P06701-1.454.454", "start_pos": 454, "end_pos": 454, "uniprot_canonical_ac": "P06701-1", "length": 978, "uniprot_id": "SIR3_YEAST", "protein_name": "Regulatory protein SIR3", "refseq_ac": "NP_013547", "refseq_name": "chromatin-silencing protein SIR3", "gene_name": "SIR3", "gene_names_uniprotkb": "SIR3; CMT1; L9753.10; MAR2; STE8", "gene_names_refseq": "CMT1; MAR2; SIR3; STE8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06701", "url": "https://www.uniprot.org/uniprotkb/P06701" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "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": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" } ], "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": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" } ], "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": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" } ], "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": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" } ], "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": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" } ], "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": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701", "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": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434", "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": "NGKPGIPRGNTKIHSMNENP", "down_seq": "PEKGNAKMIDFATLSKLKKK", "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": "Thr454", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" }, { "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": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434" }, { "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": "Thr454" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "402", "end_pos": "402" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "454", "end_pos": "454" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "2", "end_pos": "2" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "831", "end_pos": "831" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P06701-1.448.448", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06701-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "P06701-1", "length": 978, "uniprot_id": "SIR3_YEAST", "protein_name": "Regulatory protein SIR3", "refseq_ac": "NP_013547", "refseq_name": "chromatin-silencing protein SIR3", "gene_name": "SIR3", "gene_names_uniprotkb": "SIR3; CMT1; L9753.10; MAR2; STE8", "gene_names_refseq": "CMT1; MAR2; SIR3; STE8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06701", "url": "https://www.uniprot.org/uniprotkb/P06701" } ], "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": "P06701", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P06701" }, { "database": "O-GlcNAc Atlas", "id": "P06701", "url": "https://oglcnac.org/atlas/detail/P06701" } ], "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": "P06701", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P06701", "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": "P06701", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P06701" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "402", "end_pos": "402" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "454", "end_pos": "454" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "2", "end_pos": "2" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "831", "end_pos": "831" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P06701-1.2.2", "categories": [ "mutagenesis_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": "P06701-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P06701-1", "length": 978, "uniprot_id": "SIR3_YEAST", "protein_name": "Regulatory protein SIR3", "refseq_ac": "NP_013547", "refseq_name": "chromatin-silencing protein SIR3", "gene_name": "SIR3", "gene_names_uniprotkb": "SIR3; CMT1; L9753.10; MAR2; STE8", "gene_names_refseq": "CMT1; MAR2; SIR3; STE8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06701", "url": "https://www.uniprot.org/uniprotkb/P06701" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Importance of the Sir3 N terminus and its acetylation for yeast transcriptional silencing.", "journal": "Genetics", "date": "2004-09", "authors": "Wang Xiaorong, Connelly Jessica J, Wang Chia-Lin, Sternglanz Rolf", "evidence": [ { "database": "UniProtKB", "id": "P06701", "url": "https://www.uniprot.org/uniprotkb/P06701" } ], "reference": [ { "type": "PubMed", "id": "15454564", "url": "https://glygen.org/publication/PubMed/15454564" } ] } ], "crossref": [ { "id": "P06701", "url": "https://www.uniprot.org/uniprotkb/P06701", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "15454564", "url": "https://glygen.org/publication/PubMed/15454564", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "A", "start_aa": "A", "up_seq": "M", "down_seq": "KTLKDLDGWQVIITDDQGRV", "mutagenesis": [ { "sequence_org": "A", "sequence_mut": "G", "comment": "No acetylation, reduced silencing activity.", "evidence": [ { "database": "UniProtKB", "id": "P06701", "url": "https://www.uniprot.org/uniprotkb/P06701" }, { "database": "PubMed", "id": "15454564", "url": "https://glygen.org/publication/PubMed/15454564" } ] }, { "sequence_org": "A", "sequence_mut": "Q", "comment": "No acetylation, No silencing activity.", "evidence": [ { "database": "UniProtKB", "id": "P06701", "url": "https://www.uniprot.org/uniprotkb/P06701" }, { "database": "PubMed", "id": "15454564", "url": "https://glygen.org/publication/PubMed/15454564" } ] }, { "sequence_org": "A", "sequence_mut": "S", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "P06701", "url": "https://www.uniprot.org/uniprotkb/P06701" }, { "database": "PubMed", "id": "15454564", "url": "https://glygen.org/publication/PubMed/15454564" } ] }, { "sequence_org": "A", "sequence_mut": "T", "comment": "Reduced silencing activity.", "evidence": [ { "database": "UniProtKB", "id": "P06701", "url": "https://www.uniprot.org/uniprotkb/P06701" }, { "database": "PubMed", "id": "15454564", "url": "https://glygen.org/publication/PubMed/15454564" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "402", "end_pos": "402" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "454", "end_pos": "454" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "2", "end_pos": "2" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "831", "end_pos": "831" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P06701-1.0.0", "categories": [ "glycosylation_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": "P06701-1.263.263", "start_pos": 263, "end_pos": 263, "uniprot_canonical_ac": "P06701-1", "length": 978, "uniprot_id": "SIR3_YEAST", "protein_name": "Regulatory protein SIR3", "refseq_ac": "NP_013547", "refseq_name": "chromatin-silencing protein SIR3", "gene_name": "SIR3", "gene_names_uniprotkb": "SIR3; CMT1; L9753.10; MAR2; STE8", "gene_names_refseq": "CMT1; MAR2; SIR3; STE8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06701", "url": "https://www.uniprot.org/uniprotkb/P06701" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MKKIKIEPSADDDVNNGNIP", "down_seq": "QRGTSTTHGSISPQEESVSP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434" }, { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser263" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "402", "end_pos": "402" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "454", "end_pos": "454" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "2", "end_pos": "2" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "831", "end_pos": "831" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P06701-1.267.267", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P06701-1.275.275", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P06701-1.282.282", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06701-1.267.267", "start_pos": 267, "end_pos": 267, "uniprot_canonical_ac": "P06701-1", "length": 978, "uniprot_id": "SIR3_YEAST", "protein_name": "Regulatory protein SIR3", "refseq_ac": "NP_013547", "refseq_name": "chromatin-silencing protein SIR3", "gene_name": "SIR3", "gene_names_uniprotkb": "SIR3; CMT1; L9753.10; MAR2; STE8", "gene_names_refseq": "CMT1; MAR2; SIR3; STE8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06701", "url": "https://www.uniprot.org/uniprotkb/P06701" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701", "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": "KIEPSADDDVNNGNIPSQRG", "down_seq": "STTHGSISPQEESVSPNISS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434" }, { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr267" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "402", "end_pos": "402" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "454", "end_pos": "454" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "2", "end_pos": "2" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "831", "end_pos": "831" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P06701-1.263.263", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P06701-1.275.275", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P06701-1.282.282", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P06701-1.286.286", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P06701-1.287.287", "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": "P06701-1.275.275", "start_pos": 275, "end_pos": 275, "uniprot_canonical_ac": "P06701-1", "length": 978, "uniprot_id": "SIR3_YEAST", "protein_name": "Regulatory protein SIR3", "refseq_ac": "NP_013547", "refseq_name": "chromatin-silencing protein SIR3", "gene_name": "SIR3", "gene_names_uniprotkb": "SIR3; CMT1; L9753.10; MAR2; STE8", "gene_names_refseq": "CMT1; MAR2; SIR3; STE8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06701", "url": "https://www.uniprot.org/uniprotkb/P06701" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Sir3p phosphorylation by the Slt2p pathway effects redistribution of silencing function and shortened lifespan.", "journal": "Nature genetics", "date": "2003-04", "authors": "Ray Alo, Hector Ronald E, Roy Nilanjan, Song Jee-Hyeon, Berkner Kathleen L, Runge Kurt W", "evidence": [ { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" } ], "reference": [ { "type": "PubMed", "id": "12640455", "url": "https://glygen.org/publication/PubMed/12640455" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "12640455", "url": "https://glygen.org/publication/PubMed/12640455", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434", "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": "DVNNGNIPSQRGTSTTHGSI", "down_seq": "PQEESVSPNISSASPSALTS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" }, { "database": "PubMed", "id": "12640455", "url": "https://glygen.org/publication/PubMed/12640455" }, { "database": "SGD", "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser275" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "402", "end_pos": "402" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "454", "end_pos": "454" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "2", "end_pos": "2" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "831", "end_pos": "831" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P06701-1.263.263", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P06701-1.267.267", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P06701-1.282.282", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P06701-1.286.286", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P06701-1.287.287", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P06701-1.289.289", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P06701-1.291.291", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P06701-1.294.294", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P06701-1.295.295", "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": "P06701-1.282.282", "start_pos": 282, "end_pos": 282, "uniprot_canonical_ac": "P06701-1", "length": 978, "uniprot_id": "SIR3_YEAST", "protein_name": "Regulatory protein SIR3", "refseq_ac": "NP_013547", "refseq_name": "chromatin-silencing protein SIR3", "gene_name": "SIR3", "gene_names_uniprotkb": "SIR3; CMT1; L9753.10; MAR2; STE8", "gene_names_refseq": "CMT1; MAR2; SIR3; STE8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06701", "url": "https://www.uniprot.org/uniprotkb/P06701" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" } ], "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": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701", "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": "PSQRGTSTTHGSISPQEESV", "down_seq": "PNISSASPSALTSPTDSSKI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434" }, { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser282" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "402", "end_pos": "402" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "454", "end_pos": "454" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "2", "end_pos": "2" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "831", "end_pos": "831" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P06701-1.263.263", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P06701-1.267.267", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P06701-1.275.275", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P06701-1.286.286", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P06701-1.287.287", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P06701-1.289.289", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P06701-1.291.291", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P06701-1.294.294", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P06701-1.295.295", "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": "P06701-1.286.286", "start_pos": 286, "end_pos": 286, "uniprot_canonical_ac": "P06701-1", "length": 978, "uniprot_id": "SIR3_YEAST", "protein_name": "Regulatory protein SIR3", "refseq_ac": "NP_013547", "refseq_name": "chromatin-silencing protein SIR3", "gene_name": "SIR3", "gene_names_uniprotkb": "SIR3; CMT1; L9753.10; MAR2; STE8", "gene_names_refseq": "CMT1; MAR2; SIR3; STE8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06701", "url": "https://www.uniprot.org/uniprotkb/P06701" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701", "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": "GTSTTHGSISPQEESVSPNI", "down_seq": "SASPSALTSPTDSSKILQKR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434" }, { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser286" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "402", "end_pos": "402" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "454", "end_pos": "454" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "2", "end_pos": "2" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "831", "end_pos": "831" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P06701-1.267.267", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P06701-1.275.275", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P06701-1.282.282", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P06701-1.287.287", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P06701-1.289.289", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P06701-1.291.291", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P06701-1.294.294", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P06701-1.295.295", "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": "P06701-1.287.287", "start_pos": 287, "end_pos": 287, "uniprot_canonical_ac": "P06701-1", "length": 978, "uniprot_id": "SIR3_YEAST", "protein_name": "Regulatory protein SIR3", "refseq_ac": "NP_013547", "refseq_name": "chromatin-silencing protein SIR3", "gene_name": "SIR3", "gene_names_uniprotkb": "SIR3; CMT1; L9753.10; MAR2; STE8", "gene_names_refseq": "CMT1; MAR2; SIR3; STE8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06701", "url": "https://www.uniprot.org/uniprotkb/P06701" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" } ], "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": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701", "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": "TSTTHGSISPQEESVSPNIS", "down_seq": "ASPSALTSPTDSSKILQKRS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434" }, { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser287" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "402", "end_pos": "402" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "454", "end_pos": "454" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "2", "end_pos": "2" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "831", "end_pos": "831" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P06701-1.267.267", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P06701-1.275.275", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P06701-1.282.282", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P06701-1.286.286", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06701-1.289.289", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P06701-1.291.291", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P06701-1.294.294", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P06701-1.295.295", "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": "P06701-1.289.289", "start_pos": 289, "end_pos": 289, "uniprot_canonical_ac": "P06701-1", "length": 978, "uniprot_id": "SIR3_YEAST", "protein_name": "Regulatory protein SIR3", "refseq_ac": "NP_013547", "refseq_name": "chromatin-silencing protein SIR3", "gene_name": "SIR3", "gene_names_uniprotkb": "SIR3; CMT1; L9753.10; MAR2; STE8", "gene_names_refseq": "CMT1; MAR2; SIR3; STE8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06701", "url": "https://www.uniprot.org/uniprotkb/P06701" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701", "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": "TTHGSISPQEESVSPNISSA", "down_seq": "PSALTSPTDSSKILQKRSIS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434" }, { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser289" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "402", "end_pos": "402" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "454", "end_pos": "454" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "2", "end_pos": "2" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "831", "end_pos": "831" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P06701-1.275.275", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P06701-1.282.282", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P06701-1.286.286", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06701-1.287.287", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06701-1.291.291", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P06701-1.294.294", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P06701-1.295.295", "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": "P06701-1.291.291", "start_pos": 291, "end_pos": 291, "uniprot_canonical_ac": "P06701-1", "length": 978, "uniprot_id": "SIR3_YEAST", "protein_name": "Regulatory protein SIR3", "refseq_ac": "NP_013547", "refseq_name": "chromatin-silencing protein SIR3", "gene_name": "SIR3", "gene_names_uniprotkb": "SIR3; CMT1; L9753.10; MAR2; STE8", "gene_names_refseq": "CMT1; MAR2; SIR3; STE8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06701", "url": "https://www.uniprot.org/uniprotkb/P06701" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701", "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": "HGSISPQEESVSPNISSASP", "down_seq": "ALTSPTDSSKILQKRSISKE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434" }, { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser291" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "402", "end_pos": "402" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "454", "end_pos": "454" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "2", "end_pos": "2" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "831", "end_pos": "831" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P06701-1.275.275", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P06701-1.282.282", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P06701-1.286.286", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P06701-1.287.287", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06701-1.289.289", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P06701-1.294.294", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P06701-1.295.295", "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": "P06701-1.294.294", "start_pos": 294, "end_pos": 294, "uniprot_canonical_ac": "P06701-1", "length": 978, "uniprot_id": "SIR3_YEAST", "protein_name": "Regulatory protein SIR3", "refseq_ac": "NP_013547", "refseq_name": "chromatin-silencing protein SIR3", "gene_name": "SIR3", "gene_names_uniprotkb": "SIR3; CMT1; L9753.10; MAR2; STE8", "gene_names_refseq": "CMT1; MAR2; SIR3; STE8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06701", "url": "https://www.uniprot.org/uniprotkb/P06701" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701", "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": "ISPQEESVSPNISSASPSAL", "down_seq": "SPTDSSKILQKRSISKELIV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434" }, { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr294" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "402", "end_pos": "402" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "454", "end_pos": "454" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "2", "end_pos": "2" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "831", "end_pos": "831" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P06701-1.275.275", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P06701-1.282.282", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P06701-1.286.286", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P06701-1.287.287", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P06701-1.289.289", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P06701-1.291.291", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P06701-1.295.295", "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": "P06701-1.295.295", "start_pos": 295, "end_pos": 295, "uniprot_canonical_ac": "P06701-1", "length": 978, "uniprot_id": "SIR3_YEAST", "protein_name": "Regulatory protein SIR3", "refseq_ac": "NP_013547", "refseq_name": "chromatin-silencing protein SIR3", "gene_name": "SIR3", "gene_names_uniprotkb": "SIR3; CMT1; L9753.10; MAR2; STE8", "gene_names_refseq": "CMT1; MAR2; SIR3; STE8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06701", "url": "https://www.uniprot.org/uniprotkb/P06701" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701", "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": "SPQEESVSPNISSASPSALT", "down_seq": "PTDSSKILQKRSISKELIVS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434" }, { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser295" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "402", "end_pos": "402" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "454", "end_pos": "454" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "2", "end_pos": "2" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "831", "end_pos": "831" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P06701-1.275.275", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P06701-1.282.282", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P06701-1.286.286", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P06701-1.287.287", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P06701-1.289.289", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P06701-1.291.291", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P06701-1.294.294", "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": "P06701-1.425.425", "start_pos": 425, "end_pos": 425, "uniprot_canonical_ac": "P06701-1", "length": 978, "uniprot_id": "SIR3_YEAST", "protein_name": "Regulatory protein SIR3", "refseq_ac": "NP_013547", "refseq_name": "chromatin-silencing protein SIR3", "gene_name": "SIR3", "gene_names_uniprotkb": "SIR3; CMT1; L9753.10; MAR2; STE8", "gene_names_refseq": "CMT1; MAR2; SIR3; STE8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06701", "url": "https://www.uniprot.org/uniprotkb/P06701" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701", "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": "SSKIRKIHIQETQEFSKNYT", "down_seq": "ETDNEMNGNGKPGIPRGNTK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434" }, { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr425" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "402", "end_pos": "402" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "454", "end_pos": "454" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "2", "end_pos": "2" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "831", "end_pos": "831" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P06701-1.405.405", "categories": [ "glycosylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P06701-1.406.406", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06701-1.427.427", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06701-1.427.427", "start_pos": 427, "end_pos": 427, "uniprot_canonical_ac": "P06701-1", "length": 978, "uniprot_id": "SIR3_YEAST", "protein_name": "Regulatory protein SIR3", "refseq_ac": "NP_013547", "refseq_name": "chromatin-silencing protein SIR3", "gene_name": "SIR3", "gene_names_uniprotkb": "SIR3; CMT1; L9753.10; MAR2; STE8", "gene_names_refseq": "CMT1; MAR2; SIR3; STE8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06701", "url": "https://www.uniprot.org/uniprotkb/P06701" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701", "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": "KIRKIHIQETQEFSKNYTTE", "down_seq": "DNEMNGNGKPGIPRGNTKIH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434" }, { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr427" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "402", "end_pos": "402" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "454", "end_pos": "454" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "2", "end_pos": "2" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "831", "end_pos": "831" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P06701-1.425.425", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06701-1.448.448", "start_pos": 448, "end_pos": 448, "uniprot_canonical_ac": "P06701-1", "length": 978, "uniprot_id": "SIR3_YEAST", "protein_name": "Regulatory protein SIR3", "refseq_ac": "NP_013547", "refseq_name": "chromatin-silencing protein SIR3", "gene_name": "SIR3", "gene_names_uniprotkb": "SIR3; CMT1; L9753.10; MAR2; STE8", "gene_names_refseq": "CMT1; MAR2; SIR3; STE8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06701", "url": "https://www.uniprot.org/uniprotkb/P06701" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DNEMNGNGKPGIPRGNTKIH", "down_seq": "MNENPTPEKGNAKMIDFATL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434" }, { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser448" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "402", "end_pos": "402" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "454", "end_pos": "454" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "2", "end_pos": "2" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "831", "end_pos": "831" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P06701-1.454.454", "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": "P06701-1.491.491", "start_pos": 491, "end_pos": 491, "uniprot_canonical_ac": "P06701-1", "length": 978, "uniprot_id": "SIR3_YEAST", "protein_name": "Regulatory protein SIR3", "refseq_ac": "NP_013547", "refseq_name": "chromatin-silencing protein SIR3", "gene_name": "SIR3", "gene_names_uniprotkb": "SIR3; CMT1; L9753.10; MAR2; STE8", "gene_names_refseq": "CMT1; MAR2; SIR3; STE8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06701", "url": "https://www.uniprot.org/uniprotkb/P06701" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701", "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": "LKKKYQIILDRFAPDNQVTD", "down_seq": "SQLNKLTDEQSSLDVAGLED", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434" }, { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser491" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "402", "end_pos": "402" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "454", "end_pos": "454" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "2", "end_pos": "2" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "831", "end_pos": "831" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P06701-1.492.492", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P06701-1.502.502", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P06701-1.503.503", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06701-1.492.492", "start_pos": 492, "end_pos": 492, "uniprot_canonical_ac": "P06701-1", "length": 978, "uniprot_id": "SIR3_YEAST", "protein_name": "Regulatory protein SIR3", "refseq_ac": "NP_013547", "refseq_name": "chromatin-silencing protein SIR3", "gene_name": "SIR3", "gene_names_uniprotkb": "SIR3; CMT1; L9753.10; MAR2; STE8", "gene_names_refseq": "CMT1; MAR2; SIR3; STE8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06701", "url": "https://www.uniprot.org/uniprotkb/P06701" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KKKYQIILDRFAPDNQVTDS", "down_seq": "QLNKLTDEQSSLDVAGLEDK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434" }, { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser492" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "402", "end_pos": "402" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "454", "end_pos": "454" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "2", "end_pos": "2" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "831", "end_pos": "831" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P06701-1.491.491", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P06701-1.502.502", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P06701-1.503.503", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06701-1.502.502", "start_pos": 502, "end_pos": 502, "uniprot_canonical_ac": "P06701-1", "length": 978, "uniprot_id": "SIR3_YEAST", "protein_name": "Regulatory protein SIR3", "refseq_ac": "NP_013547", "refseq_name": "chromatin-silencing protein SIR3", "gene_name": "SIR3", "gene_names_uniprotkb": "SIR3; CMT1; L9753.10; MAR2; STE8", "gene_names_refseq": "CMT1; MAR2; SIR3; STE8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06701", "url": "https://www.uniprot.org/uniprotkb/P06701" } ], "common_name": "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": "P06701", "url": "https://www.uniprot.org/uniprotkb/P06701" }, { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FAPDNQVTDSSQLNKLTDEQ", "down_seq": "SLDVAGLEDKFRKACSSSGR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434" } ], "site_lbl": "Ser502" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "402", "end_pos": "402" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "454", "end_pos": "454" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "2", "end_pos": "2" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "831", "end_pos": "831" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P06701-1.491.491", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P06701-1.492.492", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P06701-1.503.503", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06701-1.503.503", "start_pos": 503, "end_pos": 503, "uniprot_canonical_ac": "P06701-1", "length": 978, "uniprot_id": "SIR3_YEAST", "protein_name": "Regulatory protein SIR3", "refseq_ac": "NP_013547", "refseq_name": "chromatin-silencing protein SIR3", "gene_name": "SIR3", "gene_names_uniprotkb": "SIR3; CMT1; L9753.10; MAR2; STE8", "gene_names_refseq": "CMT1; MAR2; SIR3; STE8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06701", "url": "https://www.uniprot.org/uniprotkb/P06701" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "APDNQVTDSSQLNKLTDEQS", "down_seq": "LDVAGLEDKFRKACSSSGRE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434" }, { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser503" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "402", "end_pos": "402" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "454", "end_pos": "454" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "2", "end_pos": "2" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "831", "end_pos": "831" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P06701-1.491.491", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P06701-1.492.492", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P06701-1.502.502", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06701-1.831.831", "start_pos": 831, "end_pos": 831, "uniprot_canonical_ac": "P06701-1", "length": 978, "uniprot_id": "SIR3_YEAST", "protein_name": "Regulatory protein SIR3", "refseq_ac": "NP_013547", "refseq_name": "chromatin-silencing protein SIR3", "gene_name": "SIR3", "gene_names_uniprotkb": "SIR3; CMT1; L9753.10; MAR2; STE8", "gene_names_refseq": "CMT1; MAR2; SIR3; STE8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06701", "url": "https://www.uniprot.org/uniprotkb/P06701" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EISKKDFVRKGGLQKGKLVV", "down_seq": "QEMVPRYFSEAINGFKDETI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004434", "url": "https://www.yeastgenome.org/locus/S000004434" }, { "database": "iPTMnet", "id": "P06701", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06701" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser831" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "402", "end_pos": "402" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "454", "end_pos": "454" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "2", "end_pos": "2" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "831", "end_pos": "831" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06704-1.10.10", "start_pos": 10, "end_pos": 10, "uniprot_canonical_ac": "P06704-1", "length": 161, "uniprot_id": "CDC31_YEAST", "protein_name": "Cell division control protein 31", "refseq_ac": "NP_014900", "refseq_name": "centrin", "gene_name": "CDC31", "gene_names_uniprotkb": "CDC31; DSK1", "gene_names_refseq": "CDC31; DSK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06704", "url": "https://www.uniprot.org/uniprotkb/P06704" } ], "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": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704" } ], "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": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704" } ], "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": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704", "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": "S000005783", "url": "https://www.yeastgenome.org/locus/S000005783", "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": "MSKNRSSLQ", "down_seq": "GPLNSELLEEQKQEIYEAFS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704" }, { "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": "S000005783", "url": "https://www.yeastgenome.org/locus/S000005783" }, { "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": "110", "end_pos": "110" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P06704-1.6.6", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P06704-1.7.7", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06704-1.110.110", "start_pos": 110, "end_pos": 110, "uniprot_canonical_ac": "P06704-1", "length": 161, "uniprot_id": "CDC31_YEAST", "protein_name": "Cell division control protein 31", "refseq_ac": "NP_014900", "refseq_name": "centrin", "gene_name": "CDC31", "gene_names_uniprotkb": "CDC31; DSK1", "gene_names_refseq": "CDC31; DSK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06704", "url": "https://www.uniprot.org/uniprotkb/P06704" } ], "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": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "N-terminal regions of Mps1 kinase determine functional bifurcation.", "journal": "The Journal of cell biology", "date": "2010-04-05", "authors": "Araki Yasuhiro, Gombos Linda, Migueleti Suellen P S, Sivashanmugam Lavanya, Antony Claude, Schiebel Elmar", "evidence": [ { "database": "iPTMnet", "id": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704" } ], "reference": [ { "type": "PubMed", "id": "20368617", "url": "https://glygen.org/publication/PubMed/20368617" } ] } ], "crossref": [ { "id": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20368617", "url": "https://glygen.org/publication/PubMed/20368617", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005783", "url": "https://www.yeastgenome.org/locus/S000005783", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "LKRDPLDEIKRAFQLFDDDH", "down_seq": "GKISIKNLRRVAKELGETLT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "20368617", "url": "https://glygen.org/publication/PubMed/20368617" }, { "database": "SGD", "id": "S000005783", "url": "https://www.yeastgenome.org/locus/S000005783" } ], "site_lbl": "Thr110" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "upstream", "id": "P06704-1.128.128", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P06704-1.130.130", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06704-1.128.128", "start_pos": 128, "end_pos": 128, "uniprot_canonical_ac": "P06704-1", "length": 161, "uniprot_id": "CDC31_YEAST", "protein_name": "Cell division control protein 31", "refseq_ac": "NP_014900", "refseq_name": "centrin", "gene_name": "CDC31", "gene_names_uniprotkb": "CDC31; DSK1", "gene_names_refseq": "CDC31; DSK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06704", "url": "https://www.uniprot.org/uniprotkb/P06704" } ], "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": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704" } ], "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": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] }, { "title": "N-terminal regions of Mps1 kinase determine functional bifurcation.", "journal": "The Journal of cell biology", "date": "2010-04-05", "authors": "Araki Yasuhiro, Gombos Linda, Migueleti Suellen P S, Sivashanmugam Lavanya, Antony Claude, Schiebel Elmar", "evidence": [ { "database": "iPTMnet", "id": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704" } ], "reference": [ { "type": "PubMed", "id": "20368617", "url": "https://glygen.org/publication/PubMed/20368617" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704", "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": "20368617", "url": "https://glygen.org/publication/PubMed/20368617", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005783", "url": "https://www.yeastgenome.org/locus/S000005783", "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": "DHTGKISIKNLRRVAKELGE", "down_seq": "LTDEELRAMIEEFDLDGDGE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "PubMed", "id": "20368617", "url": "https://glygen.org/publication/PubMed/20368617" }, { "database": "SGD", "id": "S000005783", "url": "https://www.yeastgenome.org/locus/S000005783" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr128" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P06704-1.110.110", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06704-1.130.130", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P06704-1.130.130", "start_pos": 130, "end_pos": 130, "uniprot_canonical_ac": "P06704-1", "length": 161, "uniprot_id": "CDC31_YEAST", "protein_name": "Cell division control protein 31", "refseq_ac": "NP_014900", "refseq_name": "centrin", "gene_name": "CDC31", "gene_names_uniprotkb": "CDC31; DSK1", "gene_names_refseq": "CDC31; DSK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06704", "url": "https://www.uniprot.org/uniprotkb/P06704" } ], "common_name": "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": "P06704", "url": "https://www.uniprot.org/uniprotkb/P06704" }, { "database": "iPTMnet", "id": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704" } ], "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": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704" } ], "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": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06704", "url": "https://www.uniprot.org/uniprotkb/P06704", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005783", "url": "https://www.yeastgenome.org/locus/S000005783", "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": "T", "start_aa": "T", "up_seq": "TGKISIKNLRRVAKELGETL", "down_seq": "DEELRAMIEEFDLDGDGEIN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P06704", "url": "https://www.uniprot.org/uniprotkb/P06704" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000005783", "url": "https://www.yeastgenome.org/locus/S000005783" }, { "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": "Thr130" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P06704-1.110.110", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06704-1.128.128", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06704-1.6.6", "start_pos": 6, "end_pos": 6, "uniprot_canonical_ac": "P06704-1", "length": 161, "uniprot_id": "CDC31_YEAST", "protein_name": "Cell division control protein 31", "refseq_ac": "NP_014900", "refseq_name": "centrin", "gene_name": "CDC31", "gene_names_uniprotkb": "CDC31; DSK1", "gene_names_refseq": "CDC31; DSK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06704", "url": "https://www.uniprot.org/uniprotkb/P06704" } ], "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": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704" } ], "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": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005783", "url": "https://www.yeastgenome.org/locus/S000005783", "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": "MSKNR", "down_seq": "SLQSGPLNSELLEEQKQEIY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000005783", "url": "https://www.yeastgenome.org/locus/S000005783" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser6" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P06704-1.7.7", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P06704-1.10.10", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06704-1.70.70", "start_pos": 70, "end_pos": 70, "uniprot_canonical_ac": "P06704-1", "length": 161, "uniprot_id": "CDC31_YEAST", "protein_name": "Cell division control protein 31", "refseq_ac": "NP_014900", "refseq_name": "centrin", "gene_name": "CDC31", "gene_names_uniprotkb": "CDC31; DSK1", "gene_names_refseq": "CDC31; DSK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06704", "url": "https://www.uniprot.org/uniprotkb/P06704" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005783", "url": "https://www.yeastgenome.org/locus/S000005783", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704", "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": "KALGFELPKREILDLIDEYD", "down_seq": "EGRHLMKYDDFYIVMGEKIL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005783", "url": "https://www.yeastgenome.org/locus/S000005783" }, { "database": "iPTMnet", "id": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser70" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "70", "end_pos": "70" }, { "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": "P06704-1.7.7", "start_pos": 7, "end_pos": 7, "uniprot_canonical_ac": "P06704-1", "length": 161, "uniprot_id": "CDC31_YEAST", "protein_name": "Cell division control protein 31", "refseq_ac": "NP_014900", "refseq_name": "centrin", "gene_name": "CDC31", "gene_names_uniprotkb": "CDC31; DSK1", "gene_names_refseq": "CDC31; DSK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06704", "url": "https://www.uniprot.org/uniprotkb/P06704" } ], "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": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005783", "url": "https://www.yeastgenome.org/locus/S000005783", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MSKNRS", "down_seq": "LQSGPLNSELLEEQKQEIYE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06704", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06704" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000005783", "url": "https://www.yeastgenome.org/locus/S000005783" } ], "site_lbl": "Ser7" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P06704-1.6.6", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P06704-1.10.10", "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": "P06738-1.14.14", "start_pos": 14, "end_pos": 14, "uniprot_canonical_ac": "P06738-1", "length": 902, "uniprot_id": "PHSG_YEAST", "protein_name": "Glycogen phosphorylase", "refseq_ac": "NP_015486", "refseq_name": "glycogen phosphorylase", "gene_name": "GPH1", "gene_names_uniprotkb": "GPH1; P9584.1", "gene_names_refseq": "GPH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006364", "url": "https://www.yeastgenome.org/locus/S000006364", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738", "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": "MPPASTSTTNDMI", "down_seq": "EEPTSPHQIPRLTRRLTGFL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006364", "url": "https://www.yeastgenome.org/locus/S000006364" }, { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr14" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "14", "end_pos": "14" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P06738-1.9.9", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P06738-1.18.18", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P06738-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P06738-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P06738-1.31.31", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06738-1.153.153", "start_pos": 153, "end_pos": 153, "uniprot_canonical_ac": "P06738-1", "length": 902, "uniprot_id": "PHSG_YEAST", "protein_name": "Glycogen phosphorylase", "refseq_ac": "NP_015486", "refseq_name": "glycogen phosphorylase", "gene_name": "GPH1", "gene_names_uniprotkb": "GPH1; P9584.1", "gene_names_refseq": "GPH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006364", "url": "https://www.yeastgenome.org/locus/S000006364", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RALDNALINMKIEDPEDPAA", "down_seq": "KGKPREMIKGALDDLGFKLE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006364", "url": "https://www.yeastgenome.org/locus/S000006364" }, { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser153" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "14", "end_pos": "14" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "580", "end_pos": "580" }, { "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": "P06738-1.18.18", "start_pos": 18, "end_pos": 18, "uniprot_canonical_ac": "P06738-1", "length": 902, "uniprot_id": "PHSG_YEAST", "protein_name": "Glycogen phosphorylase", "refseq_ac": "NP_015486", "refseq_name": "glycogen phosphorylase", "gene_name": "GPH1", "gene_names_uniprotkb": "GPH1; P9584.1", "gene_names_refseq": "GPH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway.", "journal": "Molecular & cellular proteomics : MCP", "date": "2005-03", "authors": "Gruhler Albrecht, Olsen Jesper V, Mohammed Shabaz, Mortensen Peter, Faergeman Nils J, Mann Matthias, Jensen Ole N", "evidence": [ { "database": "UniProtKB", "id": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" }, { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "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": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "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": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" }, { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "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": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738", "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": "S000006364", "url": "https://www.yeastgenome.org/locus/S000006364", "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": "MPPASTSTTNDMITEEP", "down_seq": "SPHQIPRLTRRLTGFLPQEI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000006364", "url": "https://www.yeastgenome.org/locus/S000006364" }, { "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": "Thr18" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "14", "end_pos": "14" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P06738-1.9.9", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P06738-1.14.14", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P06738-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P06738-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P06738-1.31.31", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06738-1.19.19", "start_pos": 19, "end_pos": 19, "uniprot_canonical_ac": "P06738-1", "length": 902, "uniprot_id": "PHSG_YEAST", "protein_name": "Glycogen phosphorylase", "refseq_ac": "NP_015486", "refseq_name": "glycogen phosphorylase", "gene_name": "GPH1", "gene_names_uniprotkb": "GPH1; P9584.1", "gene_names_refseq": "GPH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" } ], "common_name": "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": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" }, { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "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": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "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": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Cyclin-Dependent Kinase Co-Ordinates Carbohydrate Metabolism and Cell Cycle in S.\u00a0cerevisiae.", "journal": "Molecular cell", "date": "2016-05-19", "authors": "Zhao Gang, Chen Yuping, Carey Lucas, Futcher Bruce", "evidence": [ { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "reference": [ { "type": "PubMed", "id": "27203179", "url": "https://glygen.org/publication/PubMed/27203179" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "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": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738", "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": "S000006364", "url": "https://www.yeastgenome.org/locus/S000006364", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "27203179", "url": "https://glygen.org/publication/PubMed/27203179", "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": "MPPASTSTTNDMITEEPT", "down_seq": "PHQIPRLTRRLTGFLPQEIK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" }, { "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": "S000006364", "url": "https://www.yeastgenome.org/locus/S000006364" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "27203179", "url": "https://glygen.org/publication/PubMed/27203179" }, { "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": "14", "end_pos": "14" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P06738-1.9.9", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P06738-1.14.14", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P06738-1.18.18", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P06738-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P06738-1.31.31", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06738-1.231.231", "start_pos": 231, "end_pos": 231, "uniprot_canonical_ac": "P06738-1", "length": 902, "uniprot_id": "PHSG_YEAST", "protein_name": "Glycogen phosphorylase", "refseq_ac": "NP_015486", "refseq_name": "glycogen phosphorylase", "gene_name": "GPH1", "gene_names_uniprotkb": "GPH1; P9584.1", "gene_names_refseq": "GPH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006364", "url": "https://www.yeastgenome.org/locus/S000006364", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738", "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": "GLRYEYGIFAQKIIDGYQVE", "down_seq": "PDYWLNSGNPWEIERNEVQI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006364", "url": "https://www.yeastgenome.org/locus/S000006364" }, { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr231" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "14", "end_pos": "14" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "580", "end_pos": "580" }, { "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": "P06738-1.270.270", "start_pos": 270, "end_pos": 270, "uniprot_canonical_ac": "P06738-1", "length": 902, "uniprot_id": "PHSG_YEAST", "protein_name": "Glycogen phosphorylase", "refseq_ac": "NP_015486", "refseq_name": "glycogen phosphorylase", "gene_name": "GPH1", "gene_names_uniprotkb": "GPH1; P9584.1", "gene_names_refseq": "GPH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006364", "url": "https://www.yeastgenome.org/locus/S000006364", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QIPVTFYGYVDRPEGGKTTL", "down_seq": "ASQWIGGERVLAVAYDFPVP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006364", "url": "https://www.yeastgenome.org/locus/S000006364" }, { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser270" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "14", "end_pos": "14" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "580", "end_pos": "580" }, { "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": "P06738-1.27.27", "start_pos": 27, "end_pos": 27, "uniprot_canonical_ac": "P06738-1", "length": 902, "uniprot_id": "PHSG_YEAST", "protein_name": "Glycogen phosphorylase", "refseq_ac": "NP_015486", "refseq_name": "glycogen phosphorylase", "gene_name": "GPH1", "gene_names_uniprotkb": "GPH1; P9584.1", "gene_names_refseq": "GPH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mechanism of regulation in yeast glycogen phosphorylase.", "journal": "The Journal of biological chemistry", "date": "1995-11-10", "authors": "Lin K, Hwang P K, Fletterick R J", "evidence": [ { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "reference": [ { "type": "PubMed", "id": "7592925", "url": "https://glygen.org/publication/PubMed/7592925" } ] } ], "crossref": [ { "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "7592925", "url": "https://glygen.org/publication/PubMed/7592925", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "STTNDMITEEPTSPHQIPRL", "down_seq": "RRLTGFLPQEIKSIDTMIPL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" }, { "database": "PubMed", "id": "7592925", "url": "https://glygen.org/publication/PubMed/7592925" } ], "site_lbl": "Thr27" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "14", "end_pos": "14" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P06738-1.9.9", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P06738-1.14.14", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P06738-1.18.18", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P06738-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P06738-1.31.31", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P06738-1.43.43", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06738-1.308.308", "start_pos": 308, "end_pos": 308, "uniprot_canonical_ac": "P06738-1", "length": 902, "uniprot_id": "PHSG_YEAST", "protein_name": "Glycogen phosphorylase", "refseq_ac": "NP_015486", "refseq_name": "glycogen phosphorylase", "gene_name": "GPH1", "gene_names_uniprotkb": "GPH1; P9584.1", "gene_names_refseq": "GPH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006364", "url": "https://www.yeastgenome.org/locus/S000006364", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738", "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": "PVPGFKTSNVNNLRLWQARP", "down_seq": "TEFDFAKFNNGDYKNSVAQQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006364", "url": "https://www.yeastgenome.org/locus/S000006364" }, { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr308" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "14", "end_pos": "14" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P06738-1.309.309", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06738-1.309.309", "start_pos": 309, "end_pos": 309, "uniprot_canonical_ac": "P06738-1", "length": 902, "uniprot_id": "PHSG_YEAST", "protein_name": "Glycogen phosphorylase", "refseq_ac": "NP_015486", "refseq_name": "glycogen phosphorylase", "gene_name": "GPH1", "gene_names_uniprotkb": "GPH1; P9584.1", "gene_names_refseq": "GPH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006364", "url": "https://www.yeastgenome.org/locus/S000006364", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738", "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": "VPGFKTSNVNNLRLWQARPT", "down_seq": "EFDFAKFNNGDYKNSVAQQQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006364", "url": "https://www.yeastgenome.org/locus/S000006364" }, { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr309" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "14", "end_pos": "14" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P06738-1.308.308", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06738-1.31.31", "start_pos": 31, "end_pos": 31, "uniprot_canonical_ac": "P06738-1", "length": 902, "uniprot_id": "PHSG_YEAST", "protein_name": "Glycogen phosphorylase", "refseq_ac": "NP_015486", "refseq_name": "glycogen phosphorylase", "gene_name": "GPH1", "gene_names_uniprotkb": "GPH1; P9584.1", "gene_names_refseq": "GPH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" } ], "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": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" }, { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Amino acid sequence of two functional sites in yeast glycogen phosphorylase.", "journal": "Biochemistry", "date": "1975-05-06", "authors": "Lerch K, Fischer E H", "evidence": [ { "database": "UniProtKB", "id": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" }, { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "reference": [ { "type": "PubMed", "id": "1092346", "url": "https://glygen.org/publication/PubMed/1092346" } ] }, { "title": "Purification and crystallization of glycogen phosphorylase from Saccharomyces cerevisiae.", "journal": "Journal of molecular biology", "date": "1992-06-20", "authors": "Rath V L, Hwang P K, Fletterick R J", "evidence": [ { "database": "UniProtKB", "id": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" }, { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "reference": [ { "type": "PubMed", "id": "1613787", "url": "https://glygen.org/publication/PubMed/1613787" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" }, { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "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": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" }, { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "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": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" }, { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "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": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "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": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "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": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "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": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Convergent and divergent evolution of regulatory sites in eukaryotic phosphorylases.", "journal": "Nature", "date": "1986", "authors": "Hwang P K, Fletterick R J", "evidence": [ { "database": "UniProtKB", "id": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" }, { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "reference": [ { "type": "PubMed", "id": "3537803", "url": "https://glygen.org/publication/PubMed/3537803" } ] }, { "title": "Parallel evolution in two homologues of phosphorylase.", "journal": "Nature structural biology", "date": "1994-10", "authors": "Rath V L, Fletterick R J", "evidence": [ { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "reference": [ { "type": "PubMed", "id": "7634071", "url": "https://glygen.org/publication/PubMed/7634071" } ] }, { "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": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "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": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "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": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "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": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "1092346", "url": "https://glygen.org/publication/PubMed/1092346", "database": "PubMed", "categories": [ "Other" ] }, { "id": "1613787", "url": "https://glygen.org/publication/PubMed/1613787", "database": "PubMed", "categories": [ "Other" ] }, { "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": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "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": "3537803", "url": "https://glygen.org/publication/PubMed/3537803", "database": "PubMed", "categories": [ "Other" ] }, { "id": "7634071", "url": "https://glygen.org/publication/PubMed/7634071", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000006364", "url": "https://www.yeastgenome.org/locus/S000006364", "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": "T", "start_aa": "T", "up_seq": "DMITEEPTSPHQIPRLTRRL", "down_seq": "GFLPQEIKSIDTMIPLKSRA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "1092346", "url": "https://glygen.org/publication/PubMed/1092346" }, { "database": "PubMed", "id": "1613787", "url": "https://glygen.org/publication/PubMed/1613787" }, { "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": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" }, { "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": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "PubMed", "id": "3537803", "url": "https://glygen.org/publication/PubMed/3537803" }, { "database": "PubMed", "id": "7634071", "url": "https://glygen.org/publication/PubMed/7634071" }, { "database": "SGD", "id": "S000006364", "url": "https://www.yeastgenome.org/locus/S000006364" }, { "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": "Thr31" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "14", "end_pos": "14" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P06738-1.14.14", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P06738-1.18.18", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P06738-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P06738-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P06738-1.43.43", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 17 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06738-1.333.333", "start_pos": 333, "end_pos": 333, "uniprot_canonical_ac": "P06738-1", "length": 902, "uniprot_id": "PHSG_YEAST", "protein_name": "Glycogen phosphorylase", "refseq_ac": "NP_015486", "refseq_name": "glycogen phosphorylase", "gene_name": "GPH1", "gene_names_uniprotkb": "GPH1; P9584.1", "gene_names_refseq": "GPH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" }, { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "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": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" }, { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "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": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "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": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738", "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": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000006364", "url": "https://www.yeastgenome.org/locus/S000006364", "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": "FAKFNNGDYKNSVAQQQRAE", "down_seq": "ITAVLYPNDNFAQGKELRLK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" }, { "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": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" }, { "database": "SGD", "id": "S000006364", "url": "https://www.yeastgenome.org/locus/S000006364" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser333" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "14", "end_pos": "14" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P06738-1.335.335", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06738-1.335.335", "start_pos": 335, "end_pos": 335, "uniprot_canonical_ac": "P06738-1", "length": 902, "uniprot_id": "PHSG_YEAST", "protein_name": "Glycogen phosphorylase", "refseq_ac": "NP_015486", "refseq_name": "glycogen phosphorylase", "gene_name": "GPH1", "gene_names_uniprotkb": "GPH1; P9584.1", "gene_names_refseq": "GPH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" }, { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000006364", "url": "https://www.yeastgenome.org/locus/S000006364", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "KFNNGDYKNSVAQQQRAESI", "down_seq": "AVLYPNDNFAQGKELRLKQQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000006364", "url": "https://www.yeastgenome.org/locus/S000006364" } ], "site_lbl": "Thr335" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "14", "end_pos": "14" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P06738-1.333.333", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06738-1.43.43", "start_pos": 43, "end_pos": 43, "uniprot_canonical_ac": "P06738-1", "length": 902, "uniprot_id": "PHSG_YEAST", "protein_name": "Glycogen phosphorylase", "refseq_ac": "NP_015486", "refseq_name": "glycogen phosphorylase", "gene_name": "GPH1", "gene_names_uniprotkb": "GPH1; P9584.1", "gene_names_refseq": "GPH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" }, { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000006364", "url": "https://www.yeastgenome.org/locus/S000006364", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "IPRLTRRLTGFLPQEIKSID", "down_seq": "MIPLKSRALWNKHQVKKFNK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000006364", "url": "https://www.yeastgenome.org/locus/S000006364" } ], "site_lbl": "Thr43" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "14", "end_pos": "14" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P06738-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P06738-1.31.31", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06738-1.486.486", "start_pos": 486, "end_pos": 486, "uniprot_canonical_ac": "P06738-1", "length": 902, "uniprot_id": "PHSG_YEAST", "protein_name": "Glycogen phosphorylase", "refseq_ac": "NP_015486", "refseq_name": "glycogen phosphorylase", "gene_name": "GPH1", "gene_names_uniprotkb": "GPH1; P9584.1", "gene_names_refseq": "GPH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006364", "url": "https://www.yeastgenome.org/locus/S000006364", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AKKFPKDVDLLSRISIIEEN", "down_seq": "PERQIRMAFLAIVGSHKVNG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006364", "url": "https://www.yeastgenome.org/locus/S000006364" }, { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser486" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "14", "end_pos": "14" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "580", "end_pos": "580" }, { "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": "P06738-1.540.540", "start_pos": 540, "end_pos": 540, "uniprot_canonical_ac": "P06738-1", "length": 902, "uniprot_id": "PHSG_YEAST", "protein_name": "Glycogen phosphorylase", "refseq_ac": "NP_015486", "refseq_name": "glycogen phosphorylase", "gene_name": "GPH1", "gene_names_uniprotkb": "GPH1; P9584.1", "gene_names_refseq": "GPH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006364", "url": "https://www.yeastgenome.org/locus/S000006364", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738", "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": "FKDFVKFYGPSKFVNVTNGI", "down_seq": "PRRWLKQANPSLAKLISETL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006364", "url": "https://www.yeastgenome.org/locus/S000006364" }, { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr540" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "14", "end_pos": "14" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "upstream", "id": "P06738-1.551.551", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06738-1.551.551", "start_pos": 551, "end_pos": 551, "uniprot_canonical_ac": "P06738-1", "length": 902, "uniprot_id": "PHSG_YEAST", "protein_name": "Glycogen phosphorylase", "refseq_ac": "NP_015486", "refseq_name": "glycogen phosphorylase", "gene_name": "GPH1", "gene_names_uniprotkb": "GPH1; P9584.1", "gene_names_refseq": "GPH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "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": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006364", "url": "https://www.yeastgenome.org/locus/S000006364", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738", "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": "KFVNVTNGITPRRWLKQANP", "down_seq": "LAKLISETLNDPTEEYLLDM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006364", "url": "https://www.yeastgenome.org/locus/S000006364" }, { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser551" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "14", "end_pos": "14" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P06738-1.540.540", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06738-1.580.580", "start_pos": 580, "end_pos": 580, "uniprot_canonical_ac": "P06738-1", "length": 902, "uniprot_id": "PHSG_YEAST", "protein_name": "Glycogen phosphorylase", "refseq_ac": "NP_015486", "refseq_name": "glycogen phosphorylase", "gene_name": "GPH1", "gene_names_uniprotkb": "GPH1; P9584.1", "gene_names_refseq": "GPH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" } ], "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": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738", "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": "LNDPTEEYLLDMAKLTQLGK", "down_seq": "VEDKEFLKKWNQVKLNNKIR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Tyr580" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "14", "end_pos": "14" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "580", "end_pos": "580" }, { "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": "P06738-1.9.9", "start_pos": 9, "end_pos": 9, "uniprot_canonical_ac": "P06738-1", "length": 902, "uniprot_id": "PHSG_YEAST", "protein_name": "Glycogen phosphorylase", "refseq_ac": "NP_015486", "refseq_name": "glycogen phosphorylase", "gene_name": "GPH1", "gene_names_uniprotkb": "GPH1; P9584.1", "gene_names_refseq": "GPH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06738", "url": "https://www.uniprot.org/uniprotkb/P06738" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mechanism of regulation in yeast glycogen phosphorylase.", "journal": "The Journal of biological chemistry", "date": "1995-11-10", "authors": "Lin K, Hwang P K, Fletterick R J", "evidence": [ { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "reference": [ { "type": "PubMed", "id": "7592925", "url": "https://glygen.org/publication/PubMed/7592925" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "7592925", "url": "https://glygen.org/publication/PubMed/7592925", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000006364", "url": "https://www.yeastgenome.org/locus/S000006364", "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": "MPPASTST", "down_seq": "NDMITEEPTSPHQIPRLTRR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06738" }, { "database": "PubMed", "id": "7592925", "url": "https://glygen.org/publication/PubMed/7592925" }, { "database": "SGD", "id": "S000006364", "url": "https://www.yeastgenome.org/locus/S000006364" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr9" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "14", "end_pos": "14" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P06738-1.14.14", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P06738-1.18.18", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P06738-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P06738-1.27.27", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06774-1.199.199", "start_pos": 199, "end_pos": 199, "uniprot_canonical_ac": "P06774-1", "length": 265, "uniprot_id": "HAP2_YEAST", "protein_name": "Transcriptional activator HAP2", "refseq_ac": "NP_011277", "refseq_name": "transcription activator HAP2", "gene_name": "HAP2", "gene_names_uniprotkb": "HAP2", "gene_names_refseq": "HAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06774", "url": "https://www.uniprot.org/uniprotkb/P06774" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mutations in yeast HAP2/HAP3 define a hybrid CCAAT box binding domain.", "journal": "The EMBO journal", "date": "1993-12", "authors": "Xing Y, Fikes J D, Guarente L", "evidence": [ { "database": "UniProtKB", "id": "P06774", "url": "https://www.uniprot.org/uniprotkb/P06774" } ], "reference": [ { "type": "PubMed", "id": "8223474", "url": "https://glygen.org/publication/PubMed/8223474" } ] } ], "crossref": [ { "id": "P06774", "url": "https://www.uniprot.org/uniprotkb/P06774", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "8223474", "url": "https://glygen.org/publication/PubMed/8223474", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "AKLEEKLRISRERKPYLHES", "down_seq": "HKHAMRRPRGEGGRFLTAAE", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "L", "comment": "Favors CCACC binding over CCAAT.", "evidence": [ { "database": "UniProtKB", "id": "P06774", "url": "https://www.uniprot.org/uniprotkb/P06774" }, { "database": "PubMed", "id": "8223474", "url": "https://glygen.org/publication/PubMed/8223474" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "199", "end_pos": "199" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "19", "end_pos": "19" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "35", "end_pos": "35" }, { "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": "P06774-1.19.19", "start_pos": 19, "end_pos": 19, "uniprot_canonical_ac": "P06774-1", "length": 265, "uniprot_id": "HAP2_YEAST", "protein_name": "Transcriptional activator HAP2", "refseq_ac": "NP_011277", "refseq_name": "transcription activator HAP2", "gene_name": "HAP2", "gene_names_uniprotkb": "HAP2", "gene_names_refseq": "HAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06774", "url": "https://www.uniprot.org/uniprotkb/P06774" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003206", "url": "https://www.yeastgenome.org/locus/S000003206", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774", "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": "MSADETDAKFHPLETDLQ", "down_seq": "DTAAATSTAAASRSPSLQEK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003206", "url": "https://www.yeastgenome.org/locus/S000003206" }, { "database": "iPTMnet", "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser19" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "199", "end_pos": "199" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "19", "end_pos": "19" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "52", "end_pos": "52" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P06774-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P06774-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P06774-1.31.31", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P06774-1.33.33", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P06774-1.35.35", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06774-1.231.231", "start_pos": 231, "end_pos": 231, "uniprot_canonical_ac": "P06774-1", "length": 265, "uniprot_id": "HAP2_YEAST", "protein_name": "Transcriptional activator HAP2", "refseq_ac": "NP_011277", "refseq_name": "transcription activator HAP2", "gene_name": "HAP2", "gene_names_uniprotkb": "HAP2", "gene_names_refseq": "HAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06774", "url": "https://www.uniprot.org/uniprotkb/P06774" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003206", "url": "https://www.yeastgenome.org/locus/S000003206", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GGRFLTAAEIKAMKSKKSGA", "down_seq": "DDPDDSHEDKKITTKIIQEQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003206", "url": "https://www.yeastgenome.org/locus/S000003206" }, { "database": "iPTMnet", "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser231" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "199", "end_pos": "199" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "19", "end_pos": "19" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "52", "end_pos": "52" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P06774-1.237.237", "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": "P06774-1.237.237", "start_pos": 237, "end_pos": 237, "uniprot_canonical_ac": "P06774-1", "length": 265, "uniprot_id": "HAP2_YEAST", "protein_name": "Transcriptional activator HAP2", "refseq_ac": "NP_011277", "refseq_name": "transcription activator HAP2", "gene_name": "HAP2", "gene_names_uniprotkb": "HAP2", "gene_names_refseq": "HAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06774", "url": "https://www.uniprot.org/uniprotkb/P06774" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003206", "url": "https://www.yeastgenome.org/locus/S000003206", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AAEIKAMKSKKSGASDDPDD", "down_seq": "HEDKKITTKIIQEQPHATST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003206", "url": "https://www.yeastgenome.org/locus/S000003206" }, { "database": "iPTMnet", "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser237" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "199", "end_pos": "199" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "19", "end_pos": "19" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "52", "end_pos": "52" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P06774-1.231.231", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06774-1.265.265", "start_pos": 265, "end_pos": 265, "uniprot_canonical_ac": "P06774-1", "length": 265, "uniprot_id": "HAP2_YEAST", "protein_name": "Transcriptional activator HAP2", "refseq_ac": "NP_011277", "refseq_name": "transcription activator HAP2", "gene_name": "HAP2", "gene_names_uniprotkb": "HAP2", "gene_names_refseq": "HAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06774", "url": "https://www.uniprot.org/uniprotkb/P06774" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06774", "url": "https://www.uniprot.org/uniprotkb/P06774" }, { "database": "iPTMnet", "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" } ], "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": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" } ], "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": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06774", "url": "https://www.uniprot.org/uniprotkb/P06774", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000003206", "url": "https://www.yeastgenome.org/locus/S000003206", "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": "TKIIQEQPHATSTAAAADKK", "down_seq": "", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P06774", "url": "https://www.uniprot.org/uniprotkb/P06774" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" }, { "database": "SGD", "id": "S000003206", "url": "https://www.yeastgenome.org/locus/S000003206" }, { "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": "mutagenesis", "site_list": [ { "start_pos": "199", "end_pos": "199" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "19", "end_pos": "19" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "52", "end_pos": "52" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P06774-1.27.27", "start_pos": 27, "end_pos": 27, "uniprot_canonical_ac": "P06774-1", "length": 265, "uniprot_id": "HAP2_YEAST", "protein_name": "Transcriptional activator HAP2", "refseq_ac": "NP_011277", "refseq_name": "transcription activator HAP2", "gene_name": "HAP2", "gene_names_uniprotkb": "HAP2", "gene_names_refseq": "HAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06774", "url": "https://www.uniprot.org/uniprotkb/P06774" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06774", "url": "https://www.uniprot.org/uniprotkb/P06774" }, { "database": "iPTMnet", "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003206", "url": "https://www.yeastgenome.org/locus/S000003206", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "DAKFHPLETDLQSDTAAATS", "down_seq": "AAASRSPSLQEKPIEMPLDM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000003206", "url": "https://www.yeastgenome.org/locus/S000003206" } ], "site_lbl": "Thr27" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "199", "end_pos": "199" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "19", "end_pos": "19" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "52", "end_pos": "52" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P06774-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P06774-1.31.31", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P06774-1.33.33", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P06774-1.35.35", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06774-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P06774-1", "length": 265, "uniprot_id": "HAP2_YEAST", "protein_name": "Transcriptional activator HAP2", "refseq_ac": "NP_011277", "refseq_name": "transcription activator HAP2", "gene_name": "HAP2", "gene_names_uniprotkb": "HAP2", "gene_names_refseq": "HAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06774", "url": "https://www.uniprot.org/uniprotkb/P06774" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003206", "url": "https://www.yeastgenome.org/locus/S000003206", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774", "database": "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": "ADETDAKFHPLETDLQSDTA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003206", "url": "https://www.yeastgenome.org/locus/S000003206" }, { "database": "iPTMnet", "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "199", "end_pos": "199" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "19", "end_pos": "19" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "52", "end_pos": "52" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "upstream", "id": "P06774-1.19.19", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06774-1.31.31", "start_pos": 31, "end_pos": 31, "uniprot_canonical_ac": "P06774-1", "length": 265, "uniprot_id": "HAP2_YEAST", "protein_name": "Transcriptional activator HAP2", "refseq_ac": "NP_011277", "refseq_name": "transcription activator HAP2", "gene_name": "HAP2", "gene_names_uniprotkb": "HAP2", "gene_names_refseq": "HAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06774", "url": "https://www.uniprot.org/uniprotkb/P06774" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06774", "url": "https://www.uniprot.org/uniprotkb/P06774" }, { "database": "iPTMnet", "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003206", "url": "https://www.yeastgenome.org/locus/S000003206", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HPLETDLQSDTAAATSTAAA", "down_seq": "RSPSLQEKPIEMPLDMGKAP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000003206", "url": "https://www.yeastgenome.org/locus/S000003206" } ], "site_lbl": "Ser31" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "199", "end_pos": "199" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "19", "end_pos": "19" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "52", "end_pos": "52" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P06774-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P06774-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06774-1.33.33", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P06774-1.35.35", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06774-1.33.33", "start_pos": 33, "end_pos": 33, "uniprot_canonical_ac": "P06774-1", "length": 265, "uniprot_id": "HAP2_YEAST", "protein_name": "Transcriptional activator HAP2", "refseq_ac": "NP_011277", "refseq_name": "transcription activator HAP2", "gene_name": "HAP2", "gene_names_uniprotkb": "HAP2", "gene_names_refseq": "HAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06774", "url": "https://www.uniprot.org/uniprotkb/P06774" } ], "common_name": "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": "P06774", "url": "https://www.uniprot.org/uniprotkb/P06774" }, { "database": "iPTMnet", "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" } ], "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": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" } ], "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": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" } ], "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": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" } ], "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": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003206", "url": "https://www.yeastgenome.org/locus/S000003206", "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": "LETDLQSDTAAATSTAAASR", "down_seq": "PSLQEKPIEMPLDMGKAPSP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" }, { "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": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000003206", "url": "https://www.yeastgenome.org/locus/S000003206" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser33" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "199", "end_pos": "199" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "19", "end_pos": "19" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "52", "end_pos": "52" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P06774-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P06774-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06774-1.31.31", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06774-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P06774-1.52.52", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06774-1.35.35", "start_pos": 35, "end_pos": 35, "uniprot_canonical_ac": "P06774-1", "length": 265, "uniprot_id": "HAP2_YEAST", "protein_name": "Transcriptional activator HAP2", "refseq_ac": "NP_011277", "refseq_name": "transcription activator HAP2", "gene_name": "HAP2", "gene_names_uniprotkb": "HAP2", "gene_names_refseq": "HAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06774", "url": "https://www.uniprot.org/uniprotkb/P06774" } ], "common_name": "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": "P06774", "url": "https://www.uniprot.org/uniprotkb/P06774" }, { "database": "iPTMnet", "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" } ], "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": "P06774", "url": "https://www.uniprot.org/uniprotkb/P06774" }, { "database": "iPTMnet", "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" } ], "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": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" } ], "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": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" } ], "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": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" } ], "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": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003206", "url": "https://www.yeastgenome.org/locus/S000003206", "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": "TDLQSDTAAATSTAAASRSP", "down_seq": "LQEKPIEMPLDMGKAPSPRG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000003206", "url": "https://www.yeastgenome.org/locus/S000003206" }, { "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": "Ser35" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "199", "end_pos": "199" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "19", "end_pos": "19" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "52", "end_pos": "52" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P06774-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P06774-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P06774-1.31.31", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06774-1.33.33", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P06774-1.52.52", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06774-1.52.52", "start_pos": 52, "end_pos": 52, "uniprot_canonical_ac": "P06774-1", "length": 265, "uniprot_id": "HAP2_YEAST", "protein_name": "Transcriptional activator HAP2", "refseq_ac": "NP_011277", "refseq_name": "transcription activator HAP2", "gene_name": "HAP2", "gene_names_uniprotkb": "HAP2", "gene_names_refseq": "HAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06774", "url": "https://www.uniprot.org/uniprotkb/P06774" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06774", "url": "https://www.uniprot.org/uniprotkb/P06774" }, { "database": "iPTMnet", "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" } ], "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": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" } ], "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": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" } ], "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": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" } ], "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": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06774", "url": "https://www.uniprot.org/uniprotkb/P06774", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003206", "url": "https://www.yeastgenome.org/locus/S000003206", "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": "RSPSLQEKPIEMPLDMGKAP", "down_seq": "PRGEDQRVTNEEDLFLFNRL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P06774", "url": "https://www.uniprot.org/uniprotkb/P06774" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P06774", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06774" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000003206", "url": "https://www.yeastgenome.org/locus/S000003206" }, { "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": "Ser52" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "199", "end_pos": "199" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "19", "end_pos": "19" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "52", "end_pos": "52" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P06774-1.33.33", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P06774-1.35.35", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06777-1.1071.1071", "start_pos": 1071, "end_pos": 1071, "uniprot_canonical_ac": "P06777-1", "length": 1100, "uniprot_id": "RAD1_YEAST", "protein_name": "DNA repair protein RAD1", "refseq_ac": "NP_015303", "refseq_name": "ssDNA endodeoxyribonuclease RAD1", "gene_name": "RAD1", "gene_names_uniprotkb": "RAD1", "gene_names_refseq": "LPB9; RAD12; RAD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06777", "url": "https://www.uniprot.org/uniprotkb/P06777" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06777", "url": "https://www.uniprot.org/uniprotkb/P06777" }, { "database": "iPTMnet", "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" } ], "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": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "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": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" } ], "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": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" } ], "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": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06777", "url": "https://www.uniprot.org/uniprotkb/P06777", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005943", "url": "https://www.yeastgenome.org/locus/S000005943", "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": "DLTDRIYYFLRTEKEEQEQE", "down_seq": "TDENLESPGKTTDDNALHDH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P06777", "url": "https://www.uniprot.org/uniprotkb/P06777" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000005943", "url": "https://www.yeastgenome.org/locus/S000005943" }, { "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": "Ser1071" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P06777-1.1072.1072", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06777-1.1072.1072", "start_pos": 1072, "end_pos": 1072, "uniprot_canonical_ac": "P06777-1", "length": 1100, "uniprot_id": "RAD1_YEAST", "protein_name": "DNA repair protein RAD1", "refseq_ac": "NP_015303", "refseq_name": "ssDNA endodeoxyribonuclease RAD1", "gene_name": "RAD1", "gene_names_uniprotkb": "RAD1", "gene_names_refseq": "LPB9; RAD12; RAD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06777", "url": "https://www.uniprot.org/uniprotkb/P06777" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06777", "url": "https://www.uniprot.org/uniprotkb/P06777" }, { "database": "iPTMnet", "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" } ], "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": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" } ], "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": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P06777", "url": "https://www.uniprot.org/uniprotkb/P06777", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005943", "url": "https://www.yeastgenome.org/locus/S000005943", "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": "LTDRIYYFLRTEKEEQEQES", "down_seq": "DENLESPGKTTDDNALHDHH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P06777", "url": "https://www.uniprot.org/uniprotkb/P06777" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000005943", "url": "https://www.yeastgenome.org/locus/S000005943" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr1072" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P06777-1.1071.1071", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06777-1.10.10", "start_pos": 10, "end_pos": 10, "uniprot_canonical_ac": "P06777-1", "length": 1100, "uniprot_id": "RAD1_YEAST", "protein_name": "DNA repair protein RAD1", "refseq_ac": "NP_015303", "refseq_name": "ssDNA endodeoxyribonuclease RAD1", "gene_name": "RAD1", "gene_names_uniprotkb": "RAD1", "gene_names_refseq": "LPB9; RAD12; RAD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06777", "url": "https://www.uniprot.org/uniprotkb/P06777" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005943", "url": "https://www.yeastgenome.org/locus/S000005943", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777", "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": "MSQLFYQGD", "down_seq": "DDELQEELTRQTTQASQSSK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005943", "url": "https://www.yeastgenome.org/locus/S000005943" }, { "database": "iPTMnet", "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" }, { "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": "phosphorylation", "site_list": [ { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P06777-1.6.6", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P06777-1.26.26", "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": "P06777-1.181.181", "start_pos": 181, "end_pos": 181, "uniprot_canonical_ac": "P06777-1", "length": 1100, "uniprot_id": "RAD1_YEAST", "protein_name": "DNA repair protein RAD1", "refseq_ac": "NP_015303", "refseq_name": "ssDNA endodeoxyribonuclease RAD1", "gene_name": "RAD1", "gene_names_uniprotkb": "RAD1", "gene_names_refseq": "LPB9; RAD12; RAD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06777", "url": "https://www.uniprot.org/uniprotkb/P06777" } ], "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": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005943", "url": "https://www.yeastgenome.org/locus/S000005943", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LEELSWFSNTGKDDDDTAVE", "down_seq": "DDELFERPFNVVTADSLSIE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000005943", "url": "https://www.yeastgenome.org/locus/S000005943" } ], "site_lbl": "Ser181" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "629", "end_pos": "629" }, { "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": "P06777-1.26.26", "start_pos": 26, "end_pos": 26, "uniprot_canonical_ac": "P06777-1", "length": 1100, "uniprot_id": "RAD1_YEAST", "protein_name": "DNA repair protein RAD1", "refseq_ac": "NP_015303", "refseq_name": "ssDNA endodeoxyribonuclease RAD1", "gene_name": "RAD1", "gene_names_uniprotkb": "RAD1", "gene_names_refseq": "LPB9; RAD12; RAD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06777", "url": "https://www.uniprot.org/uniprotkb/P06777" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005943", "url": "https://www.yeastgenome.org/locus/S000005943", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YQGDSDDELQEELTRQTTQA", "down_seq": "QSSKIKNEDEPDDSNHLNEV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005943", "url": "https://www.yeastgenome.org/locus/S000005943" }, { "database": "iPTMnet", "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser26" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P06777-1.6.6", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P06777-1.10.10", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P06777-1.40.40", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06777-1.40.40", "start_pos": 40, "end_pos": 40, "uniprot_canonical_ac": "P06777-1", "length": 1100, "uniprot_id": "RAD1_YEAST", "protein_name": "DNA repair protein RAD1", "refseq_ac": "NP_015303", "refseq_name": "ssDNA endodeoxyribonuclease RAD1", "gene_name": "RAD1", "gene_names_uniprotkb": "RAD1", "gene_names_refseq": "LPB9; RAD12; RAD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06777", "url": "https://www.uniprot.org/uniprotkb/P06777" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06777", "url": "https://www.uniprot.org/uniprotkb/P06777" }, { "database": "iPTMnet", "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" } ], "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": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" } ], "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": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" } ], "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": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777", "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": "S000005943", "url": "https://www.yeastgenome.org/locus/S000005943", "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": "RQTTQASQSSKIKNEDEPDD", "down_seq": "NHLNEVENEDSKVLDDDAVL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" }, { "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": "S000005943", "url": "https://www.yeastgenome.org/locus/S000005943" }, { "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": "Ser40" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P06777-1.26.26", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P06777-1.51.51", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06777-1.51.51", "start_pos": 51, "end_pos": 51, "uniprot_canonical_ac": "P06777-1", "length": 1100, "uniprot_id": "RAD1_YEAST", "protein_name": "DNA repair protein RAD1", "refseq_ac": "NP_015303", "refseq_name": "ssDNA endodeoxyribonuclease RAD1", "gene_name": "RAD1", "gene_names_uniprotkb": "RAD1", "gene_names_refseq": "LPB9; RAD12; RAD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06777", "url": "https://www.uniprot.org/uniprotkb/P06777" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005943", "url": "https://www.yeastgenome.org/locus/S000005943", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777", "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": "IKNEDEPDDSNHLNEVENED", "down_seq": "KVLDDDAVLYPLIPNEPDDI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005943", "url": "https://www.yeastgenome.org/locus/S000005943" }, { "database": "iPTMnet", "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser51" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P06777-1.40.40", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06777-1.579.579", "start_pos": 579, "end_pos": 579, "uniprot_canonical_ac": "P06777-1", "length": 1100, "uniprot_id": "RAD1_YEAST", "protein_name": "DNA repair protein RAD1", "refseq_ac": "NP_015303", "refseq_name": "ssDNA endodeoxyribonuclease RAD1", "gene_name": "RAD1", "gene_names_uniprotkb": "RAD1", "gene_names_refseq": "LPB9; RAD12; RAD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06777", "url": "https://www.uniprot.org/uniprotkb/P06777" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005943", "url": "https://www.yeastgenome.org/locus/S000005943", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777", "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": "VSSTFSKEQVTTKRRRTRGA", "down_seq": "QVAAVEKLRNAGTNVDMEVV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005943", "url": "https://www.yeastgenome.org/locus/S000005943" }, { "database": "iPTMnet", "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser579" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "629", "end_pos": "629" }, { "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06777-1.613.613", "start_pos": 613, "end_pos": 613, "uniprot_canonical_ac": "P06777-1", "length": 1100, "uniprot_id": "RAD1_YEAST", "protein_name": "DNA repair protein RAD1", "refseq_ac": "NP_015303", "refseq_name": "ssDNA endodeoxyribonuclease RAD1", "gene_name": "RAD1", "gene_names_uniprotkb": "RAD1", "gene_names_refseq": "LPB9; RAD12; RAD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06777", "url": "https://www.uniprot.org/uniprotkb/P06777" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06777", "url": "https://www.uniprot.org/uniprotkb/P06777" }, { "database": "iPTMnet", "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" } ], "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": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" } ], "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": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" } ], "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": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" } ], "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": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06777", "url": "https://www.uniprot.org/uniprotkb/P06777", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777", "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": "S000005943", "url": "https://www.yeastgenome.org/locus/S000005943", "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": "NVDMEVVFEDHKLSEEIKKG", "down_seq": "GDDLDDGQEENAANDSKIFE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P06777", "url": "https://www.uniprot.org/uniprotkb/P06777" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" }, { "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": "S000005943", "url": "https://www.yeastgenome.org/locus/S000005943" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser613" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "upstream", "id": "P06777-1.629.629", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P06777-1.629.629", "start_pos": 629, "end_pos": 629, "uniprot_canonical_ac": "P06777-1", "length": 1100, "uniprot_id": "RAD1_YEAST", "protein_name": "DNA repair protein RAD1", "refseq_ac": "NP_015303", "refseq_name": "ssDNA endodeoxyribonuclease RAD1", "gene_name": "RAD1", "gene_names_uniprotkb": "RAD1", "gene_names_refseq": "LPB9; RAD12; RAD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06777", "url": "https://www.uniprot.org/uniprotkb/P06777" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005943", "url": "https://www.yeastgenome.org/locus/S000005943", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IKKGSGDDLDDGQEENAAND", "down_seq": "KIFEIQEQENEILIDDGDAE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005943", "url": "https://www.yeastgenome.org/locus/S000005943" }, { "database": "iPTMnet", "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser629" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P06777-1.613.613", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06777-1.6.6", "start_pos": 6, "end_pos": 6, "uniprot_canonical_ac": "P06777-1", "length": 1100, "uniprot_id": "RAD1_YEAST", "protein_name": "DNA repair protein RAD1", "refseq_ac": "NP_015303", "refseq_name": "ssDNA endodeoxyribonuclease RAD1", "gene_name": "RAD1", "gene_names_uniprotkb": "RAD1", "gene_names_refseq": "LPB9; RAD12; RAD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06777", "url": "https://www.uniprot.org/uniprotkb/P06777" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005943", "url": "https://www.yeastgenome.org/locus/S000005943", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777", "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": "MSQLF", "down_seq": "QGDSDDELQEELTRQTTQAS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005943", "url": "https://www.yeastgenome.org/locus/S000005943" }, { "database": "iPTMnet", "id": "P06777", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06777" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Tyr6" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P06777-1.10.10", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P06777-1.26.26", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06778-1.226.226", "start_pos": 226, "end_pos": 226, "uniprot_canonical_ac": "P06778-1", "length": 471, "uniprot_id": "RAD52_YEAST", "protein_name": "DNA repair and recombination protein RAD52", "refseq_ac": "NP_013680", "refseq_name": "recombinase RAD52", "gene_name": "RAD52", "gene_names_uniprotkb": "RAD52", "gene_names_refseq": "RAD52", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06778", "url": "https://www.uniprot.org/uniprotkb/P06778" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000004494", "url": "https://www.yeastgenome.org/locus/S000004494", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778", "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": "KVTNTNPDSTKNLVKIENTV", "down_seq": "RGTPMMAAPAEANSKNSSNK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004494", "url": "https://www.yeastgenome.org/locus/S000004494" }, { "database": "iPTMnet", "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser226" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "226", "end_pos": "226" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P06778-1.229.229", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P06778-1.240.240", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06778-1.229.229", "start_pos": 229, "end_pos": 229, "uniprot_canonical_ac": "P06778-1", "length": 471, "uniprot_id": "RAD52_YEAST", "protein_name": "DNA repair and recombination protein RAD52", "refseq_ac": "NP_013680", "refseq_name": "recombinase RAD52", "gene_name": "RAD52", "gene_names_uniprotkb": "RAD52", "gene_names_refseq": "RAD52", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06778", "url": "https://www.uniprot.org/uniprotkb/P06778" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004494", "url": "https://www.yeastgenome.org/locus/S000004494", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778", "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": "NTNPDSTKNLVKIENTVSRG", "down_seq": "PMMAAPAEANSKNSSNKDTD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004494", "url": "https://www.yeastgenome.org/locus/S000004494" }, { "database": "iPTMnet", "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr229" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "226", "end_pos": "226" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P06778-1.226.226", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P06778-1.240.240", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06778-1.240.240", "start_pos": 240, "end_pos": 240, "uniprot_canonical_ac": "P06778-1", "length": 471, "uniprot_id": "RAD52_YEAST", "protein_name": "DNA repair and recombination protein RAD52", "refseq_ac": "NP_013680", "refseq_name": "recombinase RAD52", "gene_name": "RAD52", "gene_names_uniprotkb": "RAD52", "gene_names_refseq": "RAD52", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06778", "url": "https://www.uniprot.org/uniprotkb/P06778" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004494", "url": "https://www.yeastgenome.org/locus/S000004494", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778", "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": "KIENTVSRGTPMMAAPAEAN", "down_seq": "KNSSNKDTDLKSLDASKQDQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004494", "url": "https://www.yeastgenome.org/locus/S000004494" }, { "database": "iPTMnet", "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser240" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "226", "end_pos": "226" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P06778-1.226.226", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P06778-1.229.229", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06778-1.302.302", "start_pos": 302, "end_pos": 302, "uniprot_canonical_ac": "P06778-1", "length": 471, "uniprot_id": "RAD52_YEAST", "protein_name": "DNA repair and recombination protein RAD52", "refseq_ac": "NP_013680", "refseq_name": "recombinase RAD52", "gene_name": "RAD52", "gene_names_uniprotkb": "RAD52", "gene_names_refseq": "RAD52", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06778", "url": "https://www.uniprot.org/uniprotkb/P06778" } ], "common_name": "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": "P06778", "url": "https://www.uniprot.org/uniprotkb/P06778" }, { "database": "iPTMnet", "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" } ], "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": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" } ], "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": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" } ], "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": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" } ], "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": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" } ], "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": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778", "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": "S000004494", "url": "https://www.yeastgenome.org/locus/S000004494", "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": "MGNTNSNVLTTEKDPVVAKQ", "down_seq": "PTASSNPEAEQITFVTAKAA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" }, { "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": "S000004494", "url": "https://www.yeastgenome.org/locus/S000004494" }, { "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": "Ser302" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "226", "end_pos": "226" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P06778-1.304.304", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P06778-1.306.306", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P06778-1.307.307", "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": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06778-1.304.304", "start_pos": 304, "end_pos": 304, "uniprot_canonical_ac": "P06778-1", "length": 471, "uniprot_id": "RAD52_YEAST", "protein_name": "DNA repair and recombination protein RAD52", "refseq_ac": "NP_013680", "refseq_name": "recombinase RAD52", "gene_name": "RAD52", "gene_names_uniprotkb": "RAD52", "gene_names_refseq": "RAD52", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06778", "url": "https://www.uniprot.org/uniprotkb/P06778" } ], "common_name": "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": "P06778", "url": "https://www.uniprot.org/uniprotkb/P06778" }, { "database": "iPTMnet", "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" } ], "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": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004494", "url": "https://www.yeastgenome.org/locus/S000004494", "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": "NTNSNVLTTEKDPVVAKQSP", "down_seq": "ASSNPEAEQITFVTAKAATS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000004494", "url": "https://www.yeastgenome.org/locus/S000004494" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr304" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "226", "end_pos": "226" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P06778-1.302.302", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06778-1.306.306", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P06778-1.307.307", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06778-1.306.306", "start_pos": 306, "end_pos": 306, "uniprot_canonical_ac": "P06778-1", "length": 471, "uniprot_id": "RAD52_YEAST", "protein_name": "DNA repair and recombination protein RAD52", "refseq_ac": "NP_013680", "refseq_name": "recombinase RAD52", "gene_name": "RAD52", "gene_names_uniprotkb": "RAD52", "gene_names_refseq": "RAD52", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06778", "url": "https://www.uniprot.org/uniprotkb/P06778" } ], "common_name": "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": "P06778", "url": "https://www.uniprot.org/uniprotkb/P06778" }, { "database": "iPTMnet", "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004494", "url": "https://www.yeastgenome.org/locus/S000004494", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NSNVLTTEKDPVVAKQSPTA", "down_seq": "SNPEAEQITFVTAKAATSVQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000004494", "url": "https://www.yeastgenome.org/locus/S000004494" } ], "site_lbl": "Ser306" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "226", "end_pos": "226" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P06778-1.302.302", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06778-1.304.304", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P06778-1.307.307", "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": "P06778-1.307.307", "start_pos": 307, "end_pos": 307, "uniprot_canonical_ac": "P06778-1", "length": 471, "uniprot_id": "RAD52_YEAST", "protein_name": "DNA repair and recombination protein RAD52", "refseq_ac": "NP_013680", "refseq_name": "recombinase RAD52", "gene_name": "RAD52", "gene_names_uniprotkb": "RAD52", "gene_names_refseq": "RAD52", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06778", "url": "https://www.uniprot.org/uniprotkb/P06778" } ], "common_name": "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": "P06778", "url": "https://www.uniprot.org/uniprotkb/P06778" }, { "database": "iPTMnet", "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004494", "url": "https://www.yeastgenome.org/locus/S000004494", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SNVLTTEKDPVVAKQSPTAS", "down_seq": "NPEAEQITFVTAKAATSVQN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000004494", "url": "https://www.yeastgenome.org/locus/S000004494" } ], "site_lbl": "Ser307" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "226", "end_pos": "226" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P06778-1.302.302", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P06778-1.304.304", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P06778-1.306.306", "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": "P06778-1.349.349", "start_pos": 349, "end_pos": 349, "uniprot_canonical_ac": "P06778-1", "length": 471, "uniprot_id": "RAD52_YEAST", "protein_name": "DNA repair and recombination protein RAD52", "refseq_ac": "NP_013680", "refseq_name": "recombinase RAD52", "gene_name": "RAD52", "gene_names_uniprotkb": "RAD52", "gene_names_refseq": "RAD52", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06778", "url": "https://www.uniprot.org/uniprotkb/P06778" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "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": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "RYIGEESIFDPKYQAQSIRH", "down_seq": "VDQTTSKHIPASVLKDKTMT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ], "site_lbl": "Thr349" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "226", "end_pos": "226" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "upstream", "id": "P06778-1.361.361", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06778-1.361.361", "start_pos": 361, "end_pos": 361, "uniprot_canonical_ac": "P06778-1", "length": 471, "uniprot_id": "RAD52_YEAST", "protein_name": "DNA repair and recombination protein RAD52", "refseq_ac": "NP_013680", "refseq_name": "recombinase RAD52", "gene_name": "RAD52", "gene_names_uniprotkb": "RAD52", "gene_names_refseq": "RAD52", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06778", "url": "https://www.uniprot.org/uniprotkb/P06778" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "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": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YQAQSIRHTVDQTTSKHIPA", "down_seq": "VLKDKTMTTARDSVYEKFAP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ], "site_lbl": "Ser361" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "226", "end_pos": "226" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P06778-1.349.349", "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": "P06778-1.411.411", "start_pos": 411, "end_pos": 411, "uniprot_canonical_ac": "P06778-1", "length": 471, "uniprot_id": "RAD52_YEAST", "protein_name": "DNA repair and recombination protein RAD52", "refseq_ac": "NP_013680", "refseq_name": "recombinase RAD52", "gene_name": "RAD52", "gene_names_uniprotkb": "RAD52", "gene_names_refseq": "RAD52", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06778", "url": "https://www.uniprot.org/uniprotkb/P06778" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" } ], "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": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004494", "url": "https://www.yeastgenome.org/locus/S000004494", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778", "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": "NDKELGPHMLEGAGNQVPRE", "down_seq": "TPIKTNATAFPPAAAPRFAP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004494", "url": "https://www.yeastgenome.org/locus/S000004494" }, { "database": "iPTMnet", "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr411" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "226", "end_pos": "226" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P06778-1.412.412", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P06778-1.416.416", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P06778-1.419.419", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06778-1.412.412", "start_pos": 412, "end_pos": 412, "uniprot_canonical_ac": "P06778-1", "length": 471, "uniprot_id": "RAD52_YEAST", "protein_name": "DNA repair and recombination protein RAD52", "refseq_ac": "NP_013680", "refseq_name": "recombinase RAD52", "gene_name": "RAD52", "gene_names_uniprotkb": "RAD52", "gene_names_refseq": "RAD52", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06778", "url": "https://www.uniprot.org/uniprotkb/P06778" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoregulation of Rad51/Rad52 by CDK1 functions as a molecular switch for cell cycle-specific activation of homologous recombination.", "journal": "Science advances", "date": "2020-02", "authors": "Lim Gyubum, Chang Yeonji, Huh Won-Ki", "evidence": [ { "database": "iPTMnet", "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" } ], "reference": [ { "type": "PubMed", "id": "32083180", "url": "https://glygen.org/publication/PubMed/32083180" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" } ], "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": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" } ], "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": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32083180", "url": "https://glygen.org/publication/PubMed/32083180", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004494", "url": "https://www.yeastgenome.org/locus/S000004494", "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": "T", "start_aa": "T", "up_seq": "DKELGPHMLEGAGNQVPRET", "down_seq": "PIKTNATAFPPAAAPRFAPP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" }, { "database": "PubMed", "id": "32083180", "url": "https://glygen.org/publication/PubMed/32083180" }, { "database": "SGD", "id": "S000004494", "url": "https://www.yeastgenome.org/locus/S000004494" }, { "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": "Thr412" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "226", "end_pos": "226" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P06778-1.411.411", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P06778-1.416.416", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P06778-1.419.419", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06778-1.416.416", "start_pos": 416, "end_pos": 416, "uniprot_canonical_ac": "P06778-1", "length": 471, "uniprot_id": "RAD52_YEAST", "protein_name": "DNA repair and recombination protein RAD52", "refseq_ac": "NP_013680", "refseq_name": "recombinase RAD52", "gene_name": "RAD52", "gene_names_uniprotkb": "RAD52", "gene_names_refseq": "RAD52", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06778", "url": "https://www.uniprot.org/uniprotkb/P06778" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004494", "url": "https://www.yeastgenome.org/locus/S000004494", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778", "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": "GPHMLEGAGNQVPRETTPIK", "down_seq": "NATAFPPAAAPRFAPPSKVV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004494", "url": "https://www.yeastgenome.org/locus/S000004494" }, { "database": "iPTMnet", "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr416" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "226", "end_pos": "226" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P06778-1.411.411", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P06778-1.412.412", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P06778-1.419.419", "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": "P06778-1.419.419", "start_pos": 419, "end_pos": 419, "uniprot_canonical_ac": "P06778-1", "length": 471, "uniprot_id": "RAD52_YEAST", "protein_name": "DNA repair and recombination protein RAD52", "refseq_ac": "NP_013680", "refseq_name": "recombinase RAD52", "gene_name": "RAD52", "gene_names_uniprotkb": "RAD52", "gene_names_refseq": "RAD52", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06778", "url": "https://www.uniprot.org/uniprotkb/P06778" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004494", "url": "https://www.yeastgenome.org/locus/S000004494", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778", "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": "MLEGAGNQVPRETTPIKTNA", "down_seq": "AFPPAAAPRFAPPSKVVHPN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004494", "url": "https://www.yeastgenome.org/locus/S000004494" }, { "database": "iPTMnet", "id": "P06778", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06778" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr419" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "226", "end_pos": "226" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P06778-1.411.411", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P06778-1.412.412", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P06778-1.416.416", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06779-1.107.107", "start_pos": 107, "end_pos": 107, "uniprot_canonical_ac": "P06779-1", "length": 565, "uniprot_id": "RAD7_YEAST", "protein_name": "DNA repair protein RAD7", "refseq_ac": "NP_012586", "refseq_name": "UV-damaged DNA-binding protein RAD7", "gene_name": "RAD7", "gene_names_uniprotkb": "RAD7; J1665", "gene_names_refseq": "RAD7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06779", "url": "https://www.uniprot.org/uniprotkb/P06779" } ], "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": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "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": "P06779", "url": "https://www.uniprot.org/uniprotkb/P06779" }, { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "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": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "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": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779", "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": "S000003813", "url": "https://www.yeastgenome.org/locus/S000003813", "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": "TETERAQVSYDARMKLVPAD", "down_seq": "DEEEYETSHISDTPVSLSSA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" }, { "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": "S000003813", "url": "https://www.yeastgenome.org/locus/S000003813" }, { "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": "Ser107" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P06779-1.87.87", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P06779-1.89.89", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P06779-1.95.95", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P06779-1.96.96", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P06779-1.112.112", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P06779-1.114.114", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P06779-1.115.115", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P06779-1.118.118", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06779-1.112.112", "start_pos": 112, "end_pos": 112, "uniprot_canonical_ac": "P06779-1", "length": 565, "uniprot_id": "RAD7_YEAST", "protein_name": "DNA repair protein RAD7", "refseq_ac": "NP_012586", "refseq_name": "UV-damaged DNA-binding protein RAD7", "gene_name": "RAD7", "gene_names_uniprotkb": "RAD7; J1665", "gene_names_refseq": "RAD7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06779", "url": "https://www.uniprot.org/uniprotkb/P06779" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "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": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003813", "url": "https://www.yeastgenome.org/locus/S000003813", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779", "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": "AQVSYDARMKLVPADSDEEE", "down_seq": "ETSHISDTPVSLSSANDRES", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003813", "url": "https://www.yeastgenome.org/locus/S000003813" }, { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Tyr112" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P06779-1.95.95", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P06779-1.96.96", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P06779-1.107.107", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06779-1.114.114", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P06779-1.115.115", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P06779-1.118.118", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P06779-1.132.132", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06779-1.114.114", "start_pos": 114, "end_pos": 114, "uniprot_canonical_ac": "P06779-1", "length": 565, "uniprot_id": "RAD7_YEAST", "protein_name": "DNA repair protein RAD7", "refseq_ac": "NP_012586", "refseq_name": "UV-damaged DNA-binding protein RAD7", "gene_name": "RAD7", "gene_names_uniprotkb": "RAD7; J1665", "gene_names_refseq": "RAD7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06779", "url": "https://www.uniprot.org/uniprotkb/P06779" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003813", "url": "https://www.yeastgenome.org/locus/S000003813", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779", "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": "VSYDARMKLVPADSDEEEYE", "down_seq": "SHISDTPVSLSSANDRESLT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003813", "url": "https://www.yeastgenome.org/locus/S000003813" }, { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr114" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P06779-1.95.95", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P06779-1.96.96", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P06779-1.107.107", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06779-1.112.112", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P06779-1.115.115", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P06779-1.118.118", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P06779-1.132.132", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06779-1.115.115", "start_pos": 115, "end_pos": 115, "uniprot_canonical_ac": "P06779-1", "length": 565, "uniprot_id": "RAD7_YEAST", "protein_name": "DNA repair protein RAD7", "refseq_ac": "NP_012586", "refseq_name": "UV-damaged DNA-binding protein RAD7", "gene_name": "RAD7", "gene_names_uniprotkb": "RAD7; J1665", "gene_names_refseq": "RAD7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06779", "url": "https://www.uniprot.org/uniprotkb/P06779" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003813", "url": "https://www.yeastgenome.org/locus/S000003813", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779", "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": "SYDARMKLVPADSDEEEYET", "down_seq": "HISDTPVSLSSANDRESLTK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003813", "url": "https://www.yeastgenome.org/locus/S000003813" }, { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser115" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P06779-1.95.95", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P06779-1.96.96", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P06779-1.107.107", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P06779-1.112.112", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P06779-1.114.114", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P06779-1.118.118", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P06779-1.132.132", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06779-1.118.118", "start_pos": 118, "end_pos": 118, "uniprot_canonical_ac": "P06779-1", "length": 565, "uniprot_id": "RAD7_YEAST", "protein_name": "DNA repair protein RAD7", "refseq_ac": "NP_012586", "refseq_name": "UV-damaged DNA-binding protein RAD7", "gene_name": "RAD7", "gene_names_uniprotkb": "RAD7; J1665", "gene_names_refseq": "RAD7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06779", "url": "https://www.uniprot.org/uniprotkb/P06779" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06779", "url": "https://www.uniprot.org/uniprotkb/P06779" }, { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "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": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "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": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003813", "url": "https://www.yeastgenome.org/locus/S000003813", "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": "ARMKLVPADSDEEEYETSHI", "down_seq": "DTPVSLSSANDRESLTKKRQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000003813", "url": "https://www.yeastgenome.org/locus/S000003813" }, { "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": "Ser118" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P06779-1.107.107", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P06779-1.112.112", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P06779-1.114.114", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P06779-1.115.115", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P06779-1.132.132", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06779-1.132.132", "start_pos": 132, "end_pos": 132, "uniprot_canonical_ac": "P06779-1", "length": 565, "uniprot_id": "RAD7_YEAST", "protein_name": "DNA repair protein RAD7", "refseq_ac": "NP_012586", "refseq_name": "UV-damaged DNA-binding protein RAD7", "gene_name": "RAD7", "gene_names_uniprotkb": "RAD7; J1665", "gene_names_refseq": "RAD7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06779", "url": "https://www.uniprot.org/uniprotkb/P06779" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003813", "url": "https://www.yeastgenome.org/locus/S000003813", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YETSHISDTPVSLSSANDRE", "down_seq": "LTKKRQNTAKIIQNRRRKRK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003813", "url": "https://www.yeastgenome.org/locus/S000003813" }, { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser132" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P06779-1.112.112", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P06779-1.114.114", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P06779-1.115.115", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P06779-1.118.118", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06779-1.33.33", "start_pos": 33, "end_pos": 33, "uniprot_canonical_ac": "P06779-1", "length": 565, "uniprot_id": "RAD7_YEAST", "protein_name": "DNA repair protein RAD7", "refseq_ac": "NP_012586", "refseq_name": "UV-damaged DNA-binding protein RAD7", "gene_name": "RAD7", "gene_names_uniprotkb": "RAD7; J1665", "gene_names_refseq": "RAD7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06779", "url": "https://www.uniprot.org/uniprotkb/P06779" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003813", "url": "https://www.yeastgenome.org/locus/S000003813", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ENEVKGPNSALTQFLREEGI", "down_seq": "AENIKQKWYQRQSKKQEDAT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003813", "url": "https://www.yeastgenome.org/locus/S000003813" }, { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser33" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "95", "end_pos": "95" }, { "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": "P06779-1.64.64", "start_pos": 64, "end_pos": 64, "uniprot_canonical_ac": "P06779-1", "length": 565, "uniprot_id": "RAD7_YEAST", "protein_name": "DNA repair protein RAD7", "refseq_ac": "NP_012586", "refseq_name": "UV-damaged DNA-binding protein RAD7", "gene_name": "RAD7", "gene_names_uniprotkb": "RAD7; J1665", "gene_names_refseq": "RAD7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06779", "url": "https://www.uniprot.org/uniprotkb/P06779" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06779", "url": "https://www.uniprot.org/uniprotkb/P06779" }, { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "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": "P06779", "url": "https://www.uniprot.org/uniprotkb/P06779" }, { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "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": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "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": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "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": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06779", "url": "https://www.uniprot.org/uniprotkb/P06779", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003813", "url": "https://www.yeastgenome.org/locus/S000003813", "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": "RQSKKQEDATDEKKGKAEDD", "down_seq": "FTAEISRVVEDEEIDEIGTG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P06779", "url": "https://www.uniprot.org/uniprotkb/P06779" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000003813", "url": "https://www.yeastgenome.org/locus/S000003813" }, { "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": "Ser64" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P06779-1.66.66", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P06779-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P06779-1.83.83", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06779-1.66.66", "start_pos": 66, "end_pos": 66, "uniprot_canonical_ac": "P06779-1", "length": 565, "uniprot_id": "RAD7_YEAST", "protein_name": "DNA repair protein RAD7", "refseq_ac": "NP_012586", "refseq_name": "UV-damaged DNA-binding protein RAD7", "gene_name": "RAD7", "gene_names_uniprotkb": "RAD7; J1665", "gene_names_refseq": "RAD7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06779", "url": "https://www.uniprot.org/uniprotkb/P06779" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003813", "url": "https://www.yeastgenome.org/locus/S000003813", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779", "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": "SKKQEDATDEKKGKAEDDSF", "down_seq": "AEISRVVEDEEIDEIGTGSG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003813", "url": "https://www.yeastgenome.org/locus/S000003813" }, { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr66" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P06779-1.64.64", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P06779-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P06779-1.83.83", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P06779-1.85.85", "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": "P06779-1.70.70", "start_pos": 70, "end_pos": 70, "uniprot_canonical_ac": "P06779-1", "length": 565, "uniprot_id": "RAD7_YEAST", "protein_name": "DNA repair protein RAD7", "refseq_ac": "NP_012586", "refseq_name": "UV-damaged DNA-binding protein RAD7", "gene_name": "RAD7", "gene_names_uniprotkb": "RAD7; J1665", "gene_names_refseq": "RAD7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06779", "url": "https://www.uniprot.org/uniprotkb/P06779" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003813", "url": "https://www.yeastgenome.org/locus/S000003813", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779", "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": "EDATDEKKGKAEDDSFTAEI", "down_seq": "RVVEDEEIDEIGTGSGTETE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003813", "url": "https://www.yeastgenome.org/locus/S000003813" }, { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser70" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P06779-1.64.64", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P06779-1.66.66", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P06779-1.83.83", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P06779-1.85.85", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P06779-1.87.87", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P06779-1.89.89", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06779-1.83.83", "start_pos": 83, "end_pos": 83, "uniprot_canonical_ac": "P06779-1", "length": 565, "uniprot_id": "RAD7_YEAST", "protein_name": "DNA repair protein RAD7", "refseq_ac": "NP_012586", "refseq_name": "UV-damaged DNA-binding protein RAD7", "gene_name": "RAD7", "gene_names_uniprotkb": "RAD7; J1665", "gene_names_refseq": "RAD7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06779", "url": "https://www.uniprot.org/uniprotkb/P06779" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06779", "url": "https://www.uniprot.org/uniprotkb/P06779" }, { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "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": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "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": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "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": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779", "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": "S000003813", "url": "https://www.yeastgenome.org/locus/S000003813", "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": "DSFTAEISRVVEDEEIDEIG", "down_seq": "GSGTETERAQVSYDARMKLV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" }, { "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": "S000003813", "url": "https://www.yeastgenome.org/locus/S000003813" }, { "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": "Thr83" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P06779-1.64.64", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P06779-1.66.66", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P06779-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06779-1.85.85", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P06779-1.87.87", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P06779-1.89.89", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P06779-1.95.95", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P06779-1.96.96", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06779-1.85.85", "start_pos": 85, "end_pos": 85, "uniprot_canonical_ac": "P06779-1", "length": 565, "uniprot_id": "RAD7_YEAST", "protein_name": "DNA repair protein RAD7", "refseq_ac": "NP_012586", "refseq_name": "UV-damaged DNA-binding protein RAD7", "gene_name": "RAD7", "gene_names_uniprotkb": "RAD7; J1665", "gene_names_refseq": "RAD7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06779", "url": "https://www.uniprot.org/uniprotkb/P06779" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06779", "url": "https://www.uniprot.org/uniprotkb/P06779" }, { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "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": "P06779", "url": "https://www.uniprot.org/uniprotkb/P06779" }, { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "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": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "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": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "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": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "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": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06779", "url": "https://www.uniprot.org/uniprotkb/P06779", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003813", "url": "https://www.yeastgenome.org/locus/S000003813", "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": "FTAEISRVVEDEEIDEIGTG", "down_seq": "GTETERAQVSYDARMKLVPA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P06779", "url": "https://www.uniprot.org/uniprotkb/P06779" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000003813", "url": "https://www.yeastgenome.org/locus/S000003813" }, { "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": "Ser85" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P06779-1.66.66", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P06779-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06779-1.83.83", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06779-1.87.87", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P06779-1.89.89", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P06779-1.95.95", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P06779-1.96.96", "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": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06779-1.87.87", "start_pos": 87, "end_pos": 87, "uniprot_canonical_ac": "P06779-1", "length": 565, "uniprot_id": "RAD7_YEAST", "protein_name": "DNA repair protein RAD7", "refseq_ac": "NP_012586", "refseq_name": "UV-damaged DNA-binding protein RAD7", "gene_name": "RAD7", "gene_names_uniprotkb": "RAD7; J1665", "gene_names_refseq": "RAD7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06779", "url": "https://www.uniprot.org/uniprotkb/P06779" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06779", "url": "https://www.uniprot.org/uniprotkb/P06779" }, { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "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": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "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": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "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": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003813", "url": "https://www.yeastgenome.org/locus/S000003813", "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": "AEISRVVEDEEIDEIGTGSG", "down_seq": "ETERAQVSYDARMKLVPADS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000003813", "url": "https://www.yeastgenome.org/locus/S000003813" }, { "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": "Thr87" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P06779-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P06779-1.83.83", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06779-1.85.85", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06779-1.89.89", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P06779-1.95.95", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P06779-1.96.96", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P06779-1.107.107", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06779-1.89.89", "start_pos": 89, "end_pos": 89, "uniprot_canonical_ac": "P06779-1", "length": 565, "uniprot_id": "RAD7_YEAST", "protein_name": "DNA repair protein RAD7", "refseq_ac": "NP_012586", "refseq_name": "UV-damaged DNA-binding protein RAD7", "gene_name": "RAD7", "gene_names_uniprotkb": "RAD7; J1665", "gene_names_refseq": "RAD7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06779", "url": "https://www.uniprot.org/uniprotkb/P06779" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003813", "url": "https://www.yeastgenome.org/locus/S000003813", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779", "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": "ISRVVEDEEIDEIGTGSGTE", "down_seq": "ERAQVSYDARMKLVPADSDE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003813", "url": "https://www.yeastgenome.org/locus/S000003813" }, { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr89" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P06779-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P06779-1.83.83", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P06779-1.85.85", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06779-1.87.87", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P06779-1.95.95", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P06779-1.96.96", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P06779-1.107.107", "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": "P06779-1.95.95", "start_pos": 95, "end_pos": 95, "uniprot_canonical_ac": "P06779-1", "length": 565, "uniprot_id": "RAD7_YEAST", "protein_name": "DNA repair protein RAD7", "refseq_ac": "NP_012586", "refseq_name": "UV-damaged DNA-binding protein RAD7", "gene_name": "RAD7", "gene_names_uniprotkb": "RAD7; J1665", "gene_names_refseq": "RAD7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06779", "url": "https://www.uniprot.org/uniprotkb/P06779" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "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": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003813", "url": "https://www.yeastgenome.org/locus/S000003813", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779", "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": "DEEIDEIGTGSGTETERAQV", "down_seq": "YDARMKLVPADSDEEEYETS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003813", "url": "https://www.yeastgenome.org/locus/S000003813" }, { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" }, { "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": "Ser95" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P06779-1.83.83", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P06779-1.85.85", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P06779-1.87.87", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P06779-1.89.89", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P06779-1.96.96", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P06779-1.107.107", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P06779-1.112.112", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P06779-1.114.114", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P06779-1.115.115", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P06779-1.96.96", "start_pos": 96, "end_pos": 96, "uniprot_canonical_ac": "P06779-1", "length": 565, "uniprot_id": "RAD7_YEAST", "protein_name": "DNA repair protein RAD7", "refseq_ac": "NP_012586", "refseq_name": "UV-damaged DNA-binding protein RAD7", "gene_name": "RAD7", "gene_names_uniprotkb": "RAD7; J1665", "gene_names_refseq": "RAD7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06779", "url": "https://www.uniprot.org/uniprotkb/P06779" } ], "common_name": "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": "P06779", "url": "https://www.uniprot.org/uniprotkb/P06779" }, { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003813", "url": "https://www.yeastgenome.org/locus/S000003813", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "EEIDEIGTGSGTETERAQVS", "down_seq": "DARMKLVPADSDEEEYETSH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06779", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06779" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000003813", "url": "https://www.yeastgenome.org/locus/S000003813" } ], "site_lbl": "Tyr96" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P06779-1.83.83", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P06779-1.85.85", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P06779-1.87.87", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P06779-1.89.89", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P06779-1.95.95", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P06779-1.107.107", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P06779-1.112.112", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P06779-1.114.114", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P06779-1.115.115", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06780-1.102.102", "start_pos": 102, "end_pos": 102, "uniprot_canonical_ac": "P06780-1", "length": 209, "uniprot_id": "RHO1_YEAST", "protein_name": "GTP-binding protein RHO1", "refseq_ac": "NP_015491", "refseq_name": "Rho family GTPase RHO1", "gene_name": "RHO1", "gene_names_uniprotkb": "RHO1; P9325.3", "gene_names_refseq": "RHO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cryo-EM structure of the \u03b2-1,3-glucan synthase FKS1-Rho1 complex.", "journal": "Nature communications", "date": "2025-02-28", "authors": "Li Jialu, Liu Huayi, Li Jian, Liu Juxiu, Dai Xinli, Zhu Angqi, Xiao Qingjie, Qian Wenyu, Li Honghao, Guo Li, Yan Chuangye, Deng Dong, Luo Yunzi, Wang Xiang", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "reference": [ { "type": "PubMed", "id": "40021629", "url": "https://glygen.org/publication/PubMed/40021629" } ] }, { "title": "Complementing yeast rho1 mutation groups with distinct functional defects.", "journal": "The Journal of biological chemistry", "date": "2001-12-07", "authors": "Saka A, Abe M, Okano H, Minemura M, Qadota H, Utsugi T, Mino A, Tanaka K, Takai Y, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "reference": [ { "type": "PubMed", "id": "11574532", "url": "https://glygen.org/publication/PubMed/11574532" } ] } ], "crossref": [ { "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "40021629", "url": "https://glygen.org/publication/PubMed/40021629", "database": "PubMed", "categories": [ "Other" ] }, { "id": "11574532", "url": "https://glygen.org/publication/PubMed/11574532", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "E", "start_aa": "E", "up_seq": "SNVVLICFSIDLPDSLENVQ", "down_seq": "KWIAEVLHFCQGVPIILVGC", "mutagenesis": [ { "sequence_org": "E", "sequence_mut": "A", "comment": "Decreases binding to FKS1 and FKS1 activity.", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" }, { "database": "PubMed", "id": "40021629", "url": "https://glygen.org/publication/PubMed/40021629" } ] }, { "sequence_org": "E", "sequence_mut": "K", "comment": "In RHO1-11; temperature sensitive, severely decreases beta-1,3-glucan synthase activation; when associated with E-166.", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" }, { "database": "PubMed", "id": "11574532", "url": "https://glygen.org/publication/PubMed/11574532" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "104", "end_pos": "104" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P06780-1.98.98", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06780-1.104.104", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P06780-1.113.113", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P06780-1.121.121", "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": "P06780-1.104.104", "start_pos": 104, "end_pos": 104, "uniprot_canonical_ac": "P06780-1", "length": 209, "uniprot_id": "RHO1_YEAST", "protein_name": "GTP-binding protein RHO1", "refseq_ac": "NP_015491", "refseq_name": "Rho family GTPase RHO1", "gene_name": "RHO1", "gene_names_uniprotkb": "RHO1; P9325.3", "gene_names_refseq": "RHO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Complementing yeast rho1 mutation groups with distinct functional defects.", "journal": "The Journal of biological chemistry", "date": "2001-12-07", "authors": "Saka A, Abe M, Okano H, Minemura M, Qadota H, Utsugi T, Mino A, Tanaka K, Takai Y, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "reference": [ { "type": "PubMed", "id": "11574532", "url": "https://glygen.org/publication/PubMed/11574532" } ] } ], "crossref": [ { "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11574532", "url": "https://glygen.org/publication/PubMed/11574532", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "W", "start_aa": "W", "up_seq": "VVLICFSIDLPDSLENVQEK", "down_seq": "IAEVLHFCQGVPIILVGCKV", "mutagenesis": [ { "sequence_org": "W", "sequence_mut": "R", "comment": "In RHO1-4; temperature sensitive, severely decreases beta-1,3-glucan synthase activation.", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" }, { "database": "PubMed", "id": "11574532", "url": "https://glygen.org/publication/PubMed/11574532" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "104", "end_pos": "104" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P06780-1.98.98", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06780-1.102.102", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P06780-1.113.113", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P06780-1.121.121", "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": "P06780-1.10.10", "start_pos": 10, "end_pos": 10, "uniprot_canonical_ac": "P06780-1", "length": 209, "uniprot_id": "RHO1_YEAST", "protein_name": "GTP-binding protein RHO1", "refseq_ac": "NP_015491", "refseq_name": "Rho family GTPase RHO1", "gene_name": "RHO1", "gene_names_uniprotkb": "RHO1; P9325.3", "gene_names_refseq": "RHO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cryo-EM structure of the \u03b2-1,3-glucan synthase FKS1-Rho1 complex.", "journal": "Nature communications", "date": "2025-02-28", "authors": "Li Jialu, Liu Huayi, Li Jian, Liu Juxiu, Dai Xinli, Zhu Angqi, Xiao Qingjie, Qian Wenyu, Li Honghao, Guo Li, Yan Chuangye, Deng Dong, Luo Yunzi, Wang Xiang", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "reference": [ { "type": "PubMed", "id": "40021629", "url": "https://glygen.org/publication/PubMed/40021629" } ] } ], "crossref": [ { "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "40021629", "url": "https://glygen.org/publication/PubMed/40021629", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "MSQQVGNSI", "down_seq": "RKLVIVGDGACGKTCLLIVF", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "A", "comment": "Decreases binding to FKS1 and FKS1 activity.", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" }, { "database": "PubMed", "id": "40021629", "url": "https://glygen.org/publication/PubMed/40021629" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "104", "end_pos": "104" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P06780-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06780-1.8.8", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P06780-1.22.22", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P06780-1.24.24", "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": "P06780-1.113.113", "start_pos": 113, "end_pos": 113, "uniprot_canonical_ac": "P06780-1", "length": 209, "uniprot_id": "RHO1_YEAST", "protein_name": "GTP-binding protein RHO1", "refseq_ac": "NP_015491", "refseq_name": "Rho family GTPase RHO1", "gene_name": "RHO1", "gene_names_uniprotkb": "RHO1; P9325.3", "gene_names_refseq": "RHO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cryo-EM structure of the \u03b2-1,3-glucan synthase FKS1-Rho1 complex.", "journal": "Nature communications", "date": "2025-02-28", "authors": "Li Jialu, Liu Huayi, Li Jian, Liu Juxiu, Dai Xinli, Zhu Angqi, Xiao Qingjie, Qian Wenyu, Li Honghao, Guo Li, Yan Chuangye, Deng Dong, Luo Yunzi, Wang Xiang", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "reference": [ { "type": "PubMed", "id": "40021629", "url": "https://glygen.org/publication/PubMed/40021629" } ] } ], "crossref": [ { "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "40021629", "url": "https://glygen.org/publication/PubMed/40021629", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Q", "start_aa": "Q", "up_seq": "LPDSLENVQEKWIAEVLHFC", "down_seq": "GVPIILVGCKVDLRNDPQTI", "mutagenesis": [ { "sequence_org": "Q", "sequence_mut": "A", "comment": "Decreases binding to FKS1 and FKS1 activity.", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" }, { "database": "PubMed", "id": "40021629", "url": "https://glygen.org/publication/PubMed/40021629" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "104", "end_pos": "104" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P06780-1.98.98", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P06780-1.102.102", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P06780-1.104.104", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P06780-1.121.121", "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": "P06780-1.121.121", "start_pos": 121, "end_pos": 121, "uniprot_canonical_ac": "P06780-1", "length": 209, "uniprot_id": "RHO1_YEAST", "protein_name": "GTP-binding protein RHO1", "refseq_ac": "NP_015491", "refseq_name": "Rho family GTPase RHO1", "gene_name": "RHO1", "gene_names_uniprotkb": "RHO1; P9325.3", "gene_names_refseq": "RHO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Complementing yeast rho1 mutation groups with distinct functional defects.", "journal": "The Journal of biological chemistry", "date": "2001-12-07", "authors": "Saka A, Abe M, Okano H, Minemura M, Qadota H, Utsugi T, Mino A, Tanaka K, Takai Y, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "reference": [ { "type": "PubMed", "id": "11574532", "url": "https://glygen.org/publication/PubMed/11574532" } ] } ], "crossref": [ { "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11574532", "url": "https://glygen.org/publication/PubMed/11574532", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "G", "start_aa": "G", "up_seq": "QEKWIAEVLHFCQGVPIILV", "down_seq": "CKVDLRNDPQTIEQLRQEGQ", "mutagenesis": [ { "sequence_org": "G", "sequence_mut": "C", "comment": "In RHO1-5; temperature sensitive, fails to activate PCK1.", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" }, { "database": "PubMed", "id": "11574532", "url": "https://glygen.org/publication/PubMed/11574532" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "104", "end_pos": "104" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P06780-1.102.102", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P06780-1.104.104", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P06780-1.113.113", "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": "P06780-1.165.165", "start_pos": 165, "end_pos": 165, "uniprot_canonical_ac": "P06780-1", "length": 209, "uniprot_id": "RHO1_YEAST", "protein_name": "GTP-binding protein RHO1", "refseq_ac": "NP_015491", "refseq_name": "Rho family GTPase RHO1", "gene_name": "RHO1", "gene_names_uniprotkb": "RHO1; P9325.3", "gene_names_refseq": "RHO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Complementing yeast rho1 mutation groups with distinct functional defects.", "journal": "The Journal of biological chemistry", "date": "2001-12-07", "authors": "Saka A, Abe M, Okano H, Minemura M, Qadota H, Utsugi T, Mino A, Tanaka K, Takai Y, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "reference": [ { "type": "PubMed", "id": "11574532", "url": "https://glygen.org/publication/PubMed/11574532" } ] } ], "crossref": [ { "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11574532", "url": "https://glygen.org/publication/PubMed/11574532", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TSQEGQSVADQIGATGYYEC", "down_seq": "AKTGYGVREVFEAATRASLM", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "P", "comment": "In RHO1-10; temperature sensitive, severely decreases beta-1,3-glucan synthase activation; when associated with G-69.", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" }, { "database": "PubMed", "id": "11574532", "url": "https://glygen.org/publication/PubMed/11574532" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "104", "end_pos": "104" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P06780-1.145.145", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P06780-1.146.146", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P06780-1.151.151", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06780-1.167.167", "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": "P06780-1.167.167", "start_pos": 167, "end_pos": 167, "uniprot_canonical_ac": "P06780-1", "length": 209, "uniprot_id": "RHO1_YEAST", "protein_name": "GTP-binding protein RHO1", "refseq_ac": "NP_015491", "refseq_name": "Rho family GTPase RHO1", "gene_name": "RHO1", "gene_names_uniprotkb": "RHO1; P9325.3", "gene_names_refseq": "RHO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Complementing yeast rho1 mutation groups with distinct functional defects.", "journal": "The Journal of biological chemistry", "date": "2001-12-07", "authors": "Saka A, Abe M, Okano H, Minemura M, Qadota H, Utsugi T, Mino A, Tanaka K, Takai Y, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "reference": [ { "type": "PubMed", "id": "11574532", "url": "https://glygen.org/publication/PubMed/11574532" } ] } ], "crossref": [ { "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11574532", "url": "https://glygen.org/publication/PubMed/11574532", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "QEGQSVADQIGATGYYECSA", "down_seq": "TGYGVREVFEAATRASLMGK", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "E", "comment": "In RHO1-11; temperature sensitive, severely decreases beta-1,3-glucan synthase activation; when associated with K-101.", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" }, { "database": "PubMed", "id": "11574532", "url": "https://glygen.org/publication/PubMed/11574532" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "104", "end_pos": "104" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P06780-1.151.151", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06780-1.165.165", "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": "P06780-1.206.206", "start_pos": 206, "end_pos": 206, "uniprot_canonical_ac": "P06780-1", "length": 209, "uniprot_id": "RHO1_YEAST", "protein_name": "GTP-binding protein RHO1", "refseq_ac": "NP_015491", "refseq_name": "Rho family GTPase RHO1", "gene_name": "RHO1", "gene_names_uniprotkb": "RHO1; P9325.3", "gene_names_refseq": "RHO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cryo-EM structure of the \u03b2-1,3-glucan synthase FKS1-Rho1 complex.", "journal": "Nature communications", "date": "2025-02-28", "authors": "Li Jialu, Liu Huayi, Li Jian, Liu Juxiu, Dai Xinli, Zhu Angqi, Xiao Qingjie, Qian Wenyu, Li Honghao, Guo Li, Yan Chuangye, Deng Dong, Luo Yunzi, Wang Xiang", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "reference": [ { "type": "PubMed", "id": "40021629", "url": "https://glygen.org/publication/PubMed/40021629" } ] } ], "crossref": [ { "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "40021629", "url": "https://glygen.org/publication/PubMed/40021629", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "C", "start_aa": "C", "up_seq": "GKSKTNGKAKKNTTEKKKKK", "down_seq": "VLL", "mutagenesis": [ { "sequence_org": "C", "sequence_mut": "A", "comment": "Decreases binding to FKS1 and FKS1 activity.", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" }, { "database": "PubMed", "id": "40021629", "url": "https://glygen.org/publication/PubMed/40021629" } ] }, { "sequence_org": "C", "sequence_mut": "S", "comment": "Decreases binding to FKS1 and FKS1 activity.", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" }, { "database": "PubMed", "id": "40021629", "url": "https://glygen.org/publication/PubMed/40021629" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "104", "end_pos": "104" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "2", "end_pos": "2" }, { "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": "P06780-1.22.22", "start_pos": 22, "end_pos": 22, "uniprot_canonical_ac": "P06780-1", "length": 209, "uniprot_id": "RHO1_YEAST", "protein_name": "GTP-binding protein RHO1", "refseq_ac": "NP_015491", "refseq_name": "Rho family GTPase RHO1", "gene_name": "RHO1", "gene_names_uniprotkb": "RHO1; P9325.3", "gene_names_refseq": "RHO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "G", "start_aa": "G", "up_seq": "SQQVGNSIRRKLVIVGDGAC", "down_seq": "KTCLLIVFSKGQFPEVYVPT", "mutagenesis": [ { "sequence_org": "G", "sequence_mut": "A", "comment": "Abolishes GTP-binding.", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "104", "end_pos": "104" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P06780-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P06780-1.8.8", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P06780-1.10.10", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06780-1.24.24", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P06780-1.42.42", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "P06780-1.24.24", "start_pos": 24, "end_pos": 24, "uniprot_canonical_ac": "P06780-1", "length": 209, "uniprot_id": "RHO1_YEAST", "protein_name": "GTP-binding protein RHO1", "refseq_ac": "NP_015491", "refseq_name": "Rho family GTPase RHO1", "gene_name": "RHO1", "gene_names_uniprotkb": "RHO1; P9325.3", "gene_names_refseq": "RHO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Bni1p implicated in cytoskeletal control is a putative target of Rho1p small GTP binding protein in Saccharomyces cerevisiae.", "journal": "The EMBO journal", "date": "1996-11-15", "authors": "Kohno H, Tanaka K, Mino A, Umikawa M, Imamura H, Fujiwara T, Fujita Y, Hotta K, Qadota H, Watanabe T, Ohya Y, Takai Y", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "reference": [ { "type": "PubMed", "id": "8947028", "url": "https://glygen.org/publication/PubMed/8947028" } ] } ], "crossref": [ { "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "8947028", "url": "https://glygen.org/publication/PubMed/8947028", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "QVGNSIRRKLVIVGDGACGK", "down_seq": "CLLIVFSKGQFPEVYVPTVF", "mutagenesis": [ { "sequence_org": "T", "sequence_mut": "N", "comment": "Abolishes GTP-binding.", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" }, { "database": "PubMed", "id": "8947028", "url": "https://glygen.org/publication/PubMed/8947028" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "104", "end_pos": "104" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P06780-1.8.8", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P06780-1.10.10", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06780-1.22.22", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P06780-1.42.42", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P06780-1.43.43", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P06780-1.44.44", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06780-1.42.42", "start_pos": 42, "end_pos": 42, "uniprot_canonical_ac": "P06780-1", "length": 209, "uniprot_id": "RHO1_YEAST", "protein_name": "GTP-binding protein RHO1", "refseq_ac": "NP_015491", "refseq_name": "Rho family GTPase RHO1", "gene_name": "RHO1", "gene_names_uniprotkb": "RHO1; P9325.3", "gene_names_refseq": "RHO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Bni1p implicated in cytoskeletal control is a putative target of Rho1p small GTP binding protein in Saccharomyces cerevisiae.", "journal": "The EMBO journal", "date": "1996-11-15", "authors": "Kohno H, Tanaka K, Mino A, Umikawa M, Imamura H, Fujiwara T, Fujita Y, Hotta K, Qadota H, Watanabe T, Ohya Y, Takai Y", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "reference": [ { "type": "PubMed", "id": "8947028", "url": "https://glygen.org/publication/PubMed/8947028" } ] } ], "crossref": [ { "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "8947028", "url": "https://glygen.org/publication/PubMed/8947028", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "GKTCLLIVFSKGQFPEVYVP", "down_seq": "VFENYVADVEVDGRRVELAL", "mutagenesis": [ { "sequence_org": "T", "sequence_mut": "A", "comment": "Impairs interaction with targets.", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" }, { "database": "PubMed", "id": "8947028", "url": "https://glygen.org/publication/PubMed/8947028" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "104", "end_pos": "104" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P06780-1.22.22", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P06780-1.24.24", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P06780-1.43.43", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06780-1.44.44", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P06780-1.45.45", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P06780-1.60.60", "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": "P06780-1.43.43", "start_pos": 43, "end_pos": 43, "uniprot_canonical_ac": "P06780-1", "length": 209, "uniprot_id": "RHO1_YEAST", "protein_name": "GTP-binding protein RHO1", "refseq_ac": "NP_015491", "refseq_name": "Rho family GTPase RHO1", "gene_name": "RHO1", "gene_names_uniprotkb": "RHO1; P9325.3", "gene_names_refseq": "RHO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A downstream target of RHO1 small GTP-binding protein is PKC1, a homolog of protein kinase C, which leads to activation of the MAP kinase cascade in Saccharomyces cerevisiae.", "journal": "The EMBO journal", "date": "1995-12-01", "authors": "Nonaka H, Tanaka K, Hirano H, Fujiwara T, Kohno H, Umikawa M, Mino A, Takai Y", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "reference": [ { "type": "PubMed", "id": "8846785", "url": "https://glygen.org/publication/PubMed/8846785" } ] } ], "crossref": [ { "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "8846785", "url": "https://glygen.org/publication/PubMed/8846785", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "V", "start_aa": "V", "up_seq": "KTCLLIVFSKGQFPEVYVPT", "down_seq": "FENYVADVEVDGRRVELALW", "mutagenesis": [ { "sequence_org": "V", "sequence_mut": "T", "comment": "Temperature sensitive growth defect.", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" }, { "database": "PubMed", "id": "8846785", "url": "https://glygen.org/publication/PubMed/8846785" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "104", "end_pos": "104" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P06780-1.24.24", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P06780-1.42.42", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P06780-1.44.44", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06780-1.45.45", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P06780-1.60.60", "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": "P06780-1.44.44", "start_pos": 44, "end_pos": 44, "uniprot_canonical_ac": "P06780-1", "length": 209, "uniprot_id": "RHO1_YEAST", "protein_name": "GTP-binding protein RHO1", "refseq_ac": "NP_015491", "refseq_name": "Rho family GTPase RHO1", "gene_name": "RHO1", "gene_names_uniprotkb": "RHO1; P9325.3", "gene_names_refseq": "RHO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A downstream target of RHO1 small GTP-binding protein is PKC1, a homolog of protein kinase C, which leads to activation of the MAP kinase cascade in Saccharomyces cerevisiae.", "journal": "The EMBO journal", "date": "1995-12-01", "authors": "Nonaka H, Tanaka K, Hirano H, Fujiwara T, Kohno H, Umikawa M, Mino A, Takai Y", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "reference": [ { "type": "PubMed", "id": "8846785", "url": "https://glygen.org/publication/PubMed/8846785" } ] } ], "crossref": [ { "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "8846785", "url": "https://glygen.org/publication/PubMed/8846785", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "F", "start_aa": "F", "up_seq": "TCLLIVFSKGQFPEVYVPTV", "down_seq": "ENYVADVEVDGRRVELALWD", "mutagenesis": [ { "sequence_org": "F", "sequence_mut": "Y", "comment": "Temperature sensitive growth defect.", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" }, { "database": "PubMed", "id": "8846785", "url": "https://glygen.org/publication/PubMed/8846785" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "104", "end_pos": "104" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P06780-1.24.24", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06780-1.42.42", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P06780-1.43.43", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P06780-1.45.45", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P06780-1.60.60", "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": "P06780-1.45.45", "start_pos": 45, "end_pos": 45, "uniprot_canonical_ac": "P06780-1", "length": 209, "uniprot_id": "RHO1_YEAST", "protein_name": "GTP-binding protein RHO1", "refseq_ac": "NP_015491", "refseq_name": "Rho family GTPase RHO1", "gene_name": "RHO1", "gene_names_uniprotkb": "RHO1; P9325.3", "gene_names_refseq": "RHO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A downstream target of RHO1 small GTP-binding protein is PKC1, a homolog of protein kinase C, which leads to activation of the MAP kinase cascade in Saccharomyces cerevisiae.", "journal": "The EMBO journal", "date": "1995-12-01", "authors": "Nonaka H, Tanaka K, Hirano H, Fujiwara T, Kohno H, Umikawa M, Mino A, Takai Y", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "reference": [ { "type": "PubMed", "id": "8846785", "url": "https://glygen.org/publication/PubMed/8846785" } ] }, { "title": "Complementing yeast rho1 mutation groups with distinct functional defects.", "journal": "The Journal of biological chemistry", "date": "2001-12-07", "authors": "Saka A, Abe M, Okano H, Minemura M, Qadota H, Utsugi T, Mino A, Tanaka K, Takai Y, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "reference": [ { "type": "PubMed", "id": "11574532", "url": "https://glygen.org/publication/PubMed/11574532" } ] } ], "crossref": [ { "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "8846785", "url": "https://glygen.org/publication/PubMed/8846785", "database": "PubMed", "categories": [ "Other" ] }, { "id": "11574532", "url": "https://glygen.org/publication/PubMed/11574532", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "E", "start_aa": "E", "up_seq": "CLLIVFSKGQFPEVYVPTVF", "down_seq": "NYVADVEVDGRRVELALWDT", "mutagenesis": [ { "sequence_org": "E", "sequence_mut": "I", "comment": "Temperature sensitive growth defect.", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" }, { "database": "PubMed", "id": "8846785", "url": "https://glygen.org/publication/PubMed/8846785" }, { "database": "PubMed", "id": "11574532", "url": "https://glygen.org/publication/PubMed/11574532" } ] }, { "sequence_org": "E", "sequence_mut": "V", "comment": "In RHO1-2; temperature sensitive, fails to activate PKC1.", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" }, { "database": "PubMed", "id": "8846785", "url": "https://glygen.org/publication/PubMed/8846785" }, { "database": "PubMed", "id": "11574532", "url": "https://glygen.org/publication/PubMed/11574532" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "104", "end_pos": "104" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P06780-1.42.42", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06780-1.43.43", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P06780-1.44.44", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P06780-1.60.60", "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": "P06780-1.60.60", "start_pos": 60, "end_pos": 60, "uniprot_canonical_ac": "P06780-1", "length": 209, "uniprot_id": "RHO1_YEAST", "protein_name": "GTP-binding protein RHO1", "refseq_ac": "NP_015491", "refseq_name": "Rho family GTPase RHO1", "gene_name": "RHO1", "gene_names_uniprotkb": "RHO1; P9325.3", "gene_names_refseq": "RHO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Complementing yeast rho1 mutation groups with distinct functional defects.", "journal": "The Journal of biological chemistry", "date": "2001-12-07", "authors": "Saka A, Abe M, Okano H, Minemura M, Qadota H, Utsugi T, Mino A, Tanaka K, Takai Y, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "reference": [ { "type": "PubMed", "id": "11574532", "url": "https://glygen.org/publication/PubMed/11574532" } ] } ], "crossref": [ { "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11574532", "url": "https://glygen.org/publication/PubMed/11574532", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "L", "start_aa": "L", "up_seq": "VPTVFENYVADVEVDGRRVE", "down_seq": "ALWDTAGQEDYDRLRPLSYP", "mutagenesis": [ { "sequence_org": "L", "sequence_mut": "P", "comment": "In RHO1-3; temperature sensitive, severely decreases beta-1,3-glucan synthase activation.", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" }, { "database": "PubMed", "id": "11574532", "url": "https://glygen.org/publication/PubMed/11574532" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "104", "end_pos": "104" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P06780-1.42.42", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P06780-1.43.43", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P06780-1.44.44", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P06780-1.45.45", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P06780-1.68.68", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P06780-1.70.70", "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": "P06780-1.68.68", "start_pos": 68, "end_pos": 68, "uniprot_canonical_ac": "P06780-1", "length": 209, "uniprot_id": "RHO1_YEAST", "protein_name": "GTP-binding protein RHO1", "refseq_ac": "NP_015491", "refseq_name": "Rho family GTPase RHO1", "gene_name": "RHO1", "gene_names_uniprotkb": "RHO1; P9325.3", "gene_names_refseq": "RHO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Characterization of two members of the rho gene family from the yeast Saccharomyces cerevisiae.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1987-02", "authors": "Madaule P, Axel R, Myers A M", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "reference": [ { "type": "PubMed", "id": "3543936", "url": "https://glygen.org/publication/PubMed/3543936" } ] } ], "crossref": [ { "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "3543936", "url": "https://glygen.org/publication/PubMed/3543936", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Q", "start_aa": "Q", "up_seq": "VADVEVDGRRVELALWDTAG", "down_seq": "EDYDRLRPLSYPDSNVVLIC", "mutagenesis": [ { "sequence_org": "Q", "sequence_mut": "H", "comment": "Locks RHO1 in the GTP-bound form by abolishing GTP hydrolysis.", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" }, { "database": "PubMed", "id": "3543936", "url": "https://glygen.org/publication/PubMed/3543936" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "104", "end_pos": "104" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P06780-1.60.60", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06780-1.70.70", "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": "P06780-1.70.70", "start_pos": 70, "end_pos": 70, "uniprot_canonical_ac": "P06780-1", "length": 209, "uniprot_id": "RHO1_YEAST", "protein_name": "GTP-binding protein RHO1", "refseq_ac": "NP_015491", "refseq_name": "Rho family GTPase RHO1", "gene_name": "RHO1", "gene_names_uniprotkb": "RHO1; P9325.3", "gene_names_refseq": "RHO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Complementing yeast rho1 mutation groups with distinct functional defects.", "journal": "The Journal of biological chemistry", "date": "2001-12-07", "authors": "Saka A, Abe M, Okano H, Minemura M, Qadota H, Utsugi T, Mino A, Tanaka K, Takai Y, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "reference": [ { "type": "PubMed", "id": "11574532", "url": "https://glygen.org/publication/PubMed/11574532" } ] } ], "crossref": [ { "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11574532", "url": "https://glygen.org/publication/PubMed/11574532", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "DVEVDGRRVELALWDTAGQE", "down_seq": "YDRLRPLSYPDSNVVLICFS", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "G", "comment": "In RHO1-10; temperature sensitive, severely decreases beta-1,3-glucan synthase activation; when associated with P-165.", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" }, { "database": "PubMed", "id": "11574532", "url": "https://glygen.org/publication/PubMed/11574532" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "104", "end_pos": "104" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P06780-1.60.60", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06780-1.68.68", "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": "P06780-1.98.98", "start_pos": 98, "end_pos": 98, "uniprot_canonical_ac": "P06780-1", "length": 209, "uniprot_id": "RHO1_YEAST", "protein_name": "GTP-binding protein RHO1", "refseq_ac": "NP_015491", "refseq_name": "Rho family GTPase RHO1", "gene_name": "RHO1", "gene_names_uniprotkb": "RHO1; P9325.3", "gene_names_refseq": "RHO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cryo-EM structure of the \u03b2-1,3-glucan synthase FKS1-Rho1 complex.", "journal": "Nature communications", "date": "2025-02-28", "authors": "Li Jialu, Liu Huayi, Li Jian, Liu Juxiu, Dai Xinli, Zhu Angqi, Xiao Qingjie, Qian Wenyu, Li Honghao, Guo Li, Yan Chuangye, Deng Dong, Luo Yunzi, Wang Xiang", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "reference": [ { "type": "PubMed", "id": "40021629", "url": "https://glygen.org/publication/PubMed/40021629" } ] } ], "crossref": [ { "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "40021629", "url": "https://glygen.org/publication/PubMed/40021629", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "E", "start_aa": "E", "up_seq": "SYPDSNVVLICFSIDLPDSL", "down_seq": "NVQEKWIAEVLHFCQGVPII", "mutagenesis": [ { "sequence_org": "E", "sequence_mut": "A", "comment": "Decreases binding to FKS1 and FKS1 activity.", "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" }, { "database": "PubMed", "id": "40021629", "url": "https://glygen.org/publication/PubMed/40021629" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "104", "end_pos": "104" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P06780-1.102.102", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P06780-1.104.104", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P06780-1.113.113", "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": "P06780-1.145.145", "start_pos": 145, "end_pos": 145, "uniprot_canonical_ac": "P06780-1", "length": 209, "uniprot_id": "RHO1_YEAST", "protein_name": "GTP-binding protein RHO1", "refseq_ac": "NP_015491", "refseq_name": "Rho family GTPase RHO1", "gene_name": "RHO1", "gene_names_uniprotkb": "RHO1; P9325.3", "gene_names_refseq": "RHO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06780", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06780" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000006369", "url": "https://www.yeastgenome.org/locus/S000006369", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06780", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06780", "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": "DLRNDPQTIEQLRQEGQQPV", "down_seq": "SQEGQSVADQIGATGYYECS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006369", "url": "https://www.yeastgenome.org/locus/S000006369" }, { "database": "iPTMnet", "id": "P06780", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06780" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr145" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "104", "end_pos": "104" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P06780-1.146.146", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P06780-1.151.151", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P06780-1.165.165", "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": "P06780-1.146.146", "start_pos": 146, "end_pos": 146, "uniprot_canonical_ac": "P06780-1", "length": 209, "uniprot_id": "RHO1_YEAST", "protein_name": "GTP-binding protein RHO1", "refseq_ac": "NP_015491", "refseq_name": "Rho family GTPase RHO1", "gene_name": "RHO1", "gene_names_uniprotkb": "RHO1; P9325.3", "gene_names_refseq": "RHO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06780", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06780" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000006369", "url": "https://www.yeastgenome.org/locus/S000006369", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06780", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06780", "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": "LRNDPQTIEQLRQEGQQPVT", "down_seq": "QEGQSVADQIGATGYYECSA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006369", "url": "https://www.yeastgenome.org/locus/S000006369" }, { "database": "iPTMnet", "id": "P06780", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06780" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser146" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "104", "end_pos": "104" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P06780-1.145.145", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P06780-1.151.151", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P06780-1.165.165", "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": "P06780-1.151.151", "start_pos": 151, "end_pos": 151, "uniprot_canonical_ac": "P06780-1", "length": 209, "uniprot_id": "RHO1_YEAST", "protein_name": "GTP-binding protein RHO1", "refseq_ac": "NP_015491", "refseq_name": "Rho family GTPase RHO1", "gene_name": "RHO1", "gene_names_uniprotkb": "RHO1; P9325.3", "gene_names_refseq": "RHO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06780", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06780" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000006369", "url": "https://www.yeastgenome.org/locus/S000006369", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06780", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06780", "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": "QTIEQLRQEGQQPVTSQEGQ", "down_seq": "VADQIGATGYYECSAKTGYG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006369", "url": "https://www.yeastgenome.org/locus/S000006369" }, { "database": "iPTMnet", "id": "P06780", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06780" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser151" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "104", "end_pos": "104" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "151", "end_pos": "151" }, { "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": "P06780-1.145.145", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P06780-1.146.146", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P06780-1.165.165", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P06780-1.167.167", "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": "P06780-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P06780-1", "length": 209, "uniprot_id": "RHO1_YEAST", "protein_name": "GTP-binding protein RHO1", "refseq_ac": "NP_015491", "refseq_name": "Rho family GTPase RHO1", "gene_name": "RHO1", "gene_names_uniprotkb": "RHO1; P9325.3", "gene_names_refseq": "RHO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "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": "P06780", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06780" } ], "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": "P06780", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06780" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06780", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06780" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006369", "url": "https://www.yeastgenome.org/locus/S000006369", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06780", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06780", "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": "M", "down_seq": "QQVGNSIRRKLVIVGDGACG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006369", "url": "https://www.yeastgenome.org/locus/S000006369" }, { "database": "iPTMnet", "id": "P06780", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06780" }, { "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": "Ser2" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "104", "end_pos": "104" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "151", "end_pos": "151" }, { "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": "P06780-1.8.8", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P06780-1.10.10", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P06780-1.22.22", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06780-1.8.8", "start_pos": 8, "end_pos": 8, "uniprot_canonical_ac": "P06780-1", "length": 209, "uniprot_id": "RHO1_YEAST", "protein_name": "GTP-binding protein RHO1", "refseq_ac": "NP_015491", "refseq_name": "Rho family GTPase RHO1", "gene_name": "RHO1", "gene_names_uniprotkb": "RHO1; P9325.3", "gene_names_refseq": "RHO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06780", "url": "https://www.uniprot.org/uniprotkb/P06780" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06780", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06780" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006369", "url": "https://www.yeastgenome.org/locus/S000006369", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06780", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06780", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MSQQVGN", "down_seq": "IRRKLVIVGDGACGKTCLLI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006369", "url": "https://www.yeastgenome.org/locus/S000006369" }, { "database": "iPTMnet", "id": "P06780", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06780" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser8" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "104", "end_pos": "104" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "151", "end_pos": "151" }, { "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": "P06780-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06780-1.10.10", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P06780-1.22.22", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P06780-1.24.24", "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": "P06782-1.210.210", "start_pos": 210, "end_pos": 210, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Regulation of Snf1 kinase. Activation requires phosphorylation of threonine 210 by an upstream kinase as well as a distinct step mediated by the Snf4 subunit.", "journal": "The Journal of biological chemistry", "date": "2001-09-28", "authors": "McCartney R R, Schmidt M C", "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "11486005", "url": "https://glygen.org/publication/PubMed/11486005" } ] }, { "title": "N-terminal mutations modulate yeast SNF1 protein kinase function.", "journal": "Genetics", "date": "1992-11", "authors": "Estruch F, Treitel M A, Yang X, Carlson M", "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "1468623", "url": "https://glygen.org/publication/PubMed/1468623" } ] }, { "title": "Yeast Pak1 kinase associates with and activates Snf1.", "journal": "Molecular and cellular biology", "date": "2003-06", "authors": "Nath Nandita, McCartney Rhonda R, Schmidt Martin C", "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "12748292", "url": "https://glygen.org/publication/PubMed/12748292" } ] }, { "title": "Activation of yeast Snf1 and mammalian AMP-activated protein kinase by upstream kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2003-07-22", "authors": "Hong Seung-Pyo, Leiper Fiona C, Woods Angela, Carling David, Carlson Marian", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "12847291", "url": "https://glygen.org/publication/PubMed/12847291" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "PP1 phosphatase-binding motif in Reg1 protein of Saccharomyces cerevisiae is required for interaction with both the PP1 phosphatase Glc7 and the Snf1 protein kinase.", "journal": "Cellular signalling", "date": "2010-07", "authors": "Tabba Shadi, Mangat Simmanjeet, McCartney Rhonda, Schmidt Martin C", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "20170726", "url": "https://glygen.org/publication/PubMed/20170726" } ] }, { "title": "Glucose-regulated interaction of a regulatory subunit of protein phosphatase 1 with the Snf1 protein kinase in Saccharomyces cerevisiae.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1998-05-26", "authors": "Ludin K, Jiang R, Carlson M", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "9600950", "url": "https://glygen.org/publication/PubMed/9600950" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "A common molecular mechanism underlies the role of Mps1 in chromosome biorientation and the spindle assembly checkpoint.", "journal": "EMBO reports", "date": "2020-06-04", "authors": "Benzi Giorgia, Camasses Alain, Atsunori Yoshimura, Katou Yuki, Shirahige Katsuhiko, Piatti Simonetta", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "32307893", "url": "https://glygen.org/publication/PubMed/32307893" } ] }, { "title": "Saccharomyces cerevisiae nutrient signaling pathways show an unexpected early activation pattern during winemaking.", "journal": "Microbial cell factories", "date": "2020-06-06", "authors": "Vallejo Beatriz, Matallana Emilia, Aranda Agust\u00edn", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "32505207", "url": "https://glygen.org/publication/PubMed/32505207" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "title": "ADP regulates SNF1, the Saccharomyces cerevisiae homolog of AMP-activated protein kinase.", "journal": "Cell metabolism", "date": "2011-11-02", "authors": "Mayer Faith V, Heath Richard, Underwood Elizabeth, Sanders Matthew J, Carmena David, McCartney Rhonda R, Leiper Fiona C, Xiao Bing, Jing Chun, Walker Philip A, Haire Lesley F, Ogrodowicz Roksana, Martin Stephen R, Schmidt Martin C, Gamblin Steven J, Carling David", "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "22019086", "url": "https://glygen.org/publication/PubMed/22019086" } ] }, { "title": "The Saccharomyces cerevisiae AMPK, Snf1, Negatively Regulates the Hog1 MAPK Pathway in ER Stress Response.", "journal": "PLoS genetics", "date": "2015", "authors": "Mizuno Tomoaki, Masuda Yuto, Irie Kenji", "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "26394309", "url": "https://glygen.org/publication/PubMed/26394309" } ] }, { "title": "Mammalian AMP-activated protein kinase shares structural and functional homology with the catalytic domain of yeast Snf1 protein kinase.", "journal": "The Journal of biological chemistry", "date": "1994", "authors": "Mitchelhill KI, Stapleton D, Gao G, House C, Michell B, Katsis F, Witters LA, Kemp BE", "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "7905477", "url": "https://glygen.org/publication/PubMed/7905477" } ] } ], "crossref": [ { "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11486005", "url": "https://glygen.org/publication/PubMed/11486005", "database": "PubMed", "categories": [ "Other" ] }, { "id": "1468623", "url": "https://glygen.org/publication/PubMed/1468623", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "12748292", "url": "https://glygen.org/publication/PubMed/12748292", "database": "PubMed", "categories": [ "Other" ] }, { "id": "12847291", "url": "https://glygen.org/publication/PubMed/12847291", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20170726", "url": "https://glygen.org/publication/PubMed/20170726", "database": "PubMed", "categories": [ "Other" ] }, { "id": "9600950", "url": "https://glygen.org/publication/PubMed/9600950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885", "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": "32307893", "url": "https://glygen.org/publication/PubMed/32307893", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32505207", "url": "https://glygen.org/publication/PubMed/32505207", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "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": "22019086", "url": "https://glygen.org/publication/PubMed/22019086", "database": "PubMed", "categories": [ "Other" ] }, { "id": "26394309", "url": "https://glygen.org/publication/PubMed/26394309", "database": "PubMed", "categories": [ "Other" ] }, { "id": "7905477", "url": "https://glygen.org/publication/PubMed/7905477", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "NVKIADFGLSNIMTDGNFLK", "down_seq": "SCGSPNYAAPEVISGKLYAG", "mutagenesis": [ { "sequence_org": "T", "sequence_mut": "A", "comment": "Inactivates the kinase activity without affecting protein levels.", "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "PubMed", "id": "11486005", "url": "https://glygen.org/publication/PubMed/11486005" }, { "database": "PubMed", "id": "1468623", "url": "https://glygen.org/publication/PubMed/1468623" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P06782-1", "kinase_gene_name": "SNF1", "residue": "Thr", "comment": "", "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" }, { "database": "PubMed", "id": "11486005", "url": "https://glygen.org/publication/PubMed/11486005" } ], "site_lbl": "Thr210" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine; by autocatalysis", "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" }, { "database": "PubMed", "id": "12748292", "url": "https://glygen.org/publication/PubMed/12748292" }, { "database": "PubMed", "id": "12847291", "url": "https://glygen.org/publication/PubMed/12847291" }, { "database": "PubMed", "id": "1468623", "url": "https://glygen.org/publication/PubMed/1468623" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20170726", "url": "https://glygen.org/publication/PubMed/20170726" }, { "database": "PubMed", "id": "9600950", "url": "https://glygen.org/publication/PubMed/9600950" }, { "database": "SGD", "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885" }, { "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": "32307893", "url": "https://glygen.org/publication/PubMed/32307893" }, { "database": "PubMed", "id": "32505207", "url": "https://glygen.org/publication/PubMed/32505207" }, { "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": "22019086", "url": "https://glygen.org/publication/PubMed/22019086" }, { "database": "PubMed", "id": "26394309", "url": "https://glygen.org/publication/PubMed/26394309" }, { "database": "PubMed", "id": "7905477", "url": "https://glygen.org/publication/PubMed/7905477" } ], "site_lbl": "Thr210" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "mutagenesis_flag", "phosphorylation_flag" ], "glycosylation": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P06782-1.199.199", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P06782-1.203.203", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P06782-1.211.211", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P06782-1.214.214", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P06782-1.217.217", "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": 2 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 16 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06782-1.357.357", "start_pos": 357, "end_pos": 357, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The SNF1 Kinase Ubiquitin-associated Domain Restrains Its Activation, Activity, and the Yeast Life Span.", "journal": "The Journal of biological chemistry", "date": "2015-06-19", "authors": "Jiao Rubin, Postnikoff Spike, Harkness Troy A, Arnason Terra G", "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "reference": [ { "type": "PubMed", "id": "25869125", "url": "https://glygen.org/publication/PubMed/25869125" } ] } ], "crossref": [ { "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "25869125", "url": "https://glygen.org/publication/PubMed/25869125", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "G", "start_aa": "G", "up_seq": "SSPDNDEIDDNLVNILSSTM", "down_seq": "YEKDEIYESLESSEDTPAFN", "mutagenesis": [ { "sequence_org": "G", "sequence_mut": "A", "comment": "Alters kinase activation and biological activity, including enhanced allosteric subunit associations and increased oxidative stress resistance and life span; when associated with I-367.", "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "PubMed", "id": "25869125", "url": "https://glygen.org/publication/PubMed/25869125" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "upstream", "id": "P06782-1.364.364", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P06782-1.367.367", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P06782-1.373.373", "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": "P06782-1.367.367", "start_pos": 367, "end_pos": 367, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The SNF1 Kinase Ubiquitin-associated Domain Restrains Its Activation, Activity, and the Yeast Life Span.", "journal": "The Journal of biological chemistry", "date": "2015-06-19", "authors": "Jiao Rubin, Postnikoff Spike, Harkness Troy A, Arnason Terra G", "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "reference": [ { "type": "PubMed", "id": "25869125", "url": "https://glygen.org/publication/PubMed/25869125" } ] } ], "crossref": [ { "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "25869125", "url": "https://glygen.org/publication/PubMed/25869125", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "L", "start_aa": "L", "up_seq": "NLVNILSSTMGYEKDEIYES", "down_seq": "ESSEDTPAFNEIRDAYMLIK", "mutagenesis": [ { "sequence_org": "L", "sequence_mut": "I", "comment": "Alters kinase activation and biological activity, including enhanced allosteric subunit associations and increased oxidative stress resistance and life span; when associated with A-357.", "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "PubMed", "id": "25869125", "url": "https://glygen.org/publication/PubMed/25869125" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P06782-1.357.357", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P06782-1.364.364", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P06782-1.373.373", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P06782-1.383.383", "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": "P06782-1.53.53", "start_pos": 53, "end_pos": 53, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "N-terminal mutations modulate yeast SNF1 protein kinase function.", "journal": "Genetics", "date": "1992-11", "authors": "Estruch F, Treitel M A, Yang X, Carlson M", "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "1468623", "url": "https://glygen.org/publication/PubMed/1468623" } ] } ], "crossref": [ { "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "1468623", "url": "https://glygen.org/publication/PubMed/1468623", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "G", "start_aa": "G", "up_seq": "GGSNSTLNNPKSSLADGAHI", "down_seq": "NYQIVKTLGEGSFGKVKLAY", "mutagenesis": [ { "sequence_org": "G", "sequence_mut": "R", "comment": "Exhibits greater activity than wild-type SNFl in an immune complex assay where other associated molecules are present, but exhibits the same activity in a protein blot assay.", "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "PubMed", "id": "1468623", "url": "https://glygen.org/publication/PubMed/1468623" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P06782-1.45.45", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P06782-1.60.60", "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": "P06782-1.549.549", "start_pos": 549, "end_pos": 549, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "SUMOylation regulates the SNF1 protein kinase.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2013-10-22", "authors": "Simpson-Lavy Kobi J, Johnston Mark", "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "reference": [ { "type": "PubMed", "id": "24108357", "url": "https://glygen.org/publication/PubMed/24108357" } ] } ], "crossref": [ { "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "24108357", "url": "https://glygen.org/publication/PubMed/24108357", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "LGAEWAKPSEEDLWTIKLRW", "down_seq": "YDIGNKTNTNEKIPDLMKMV", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "R", "comment": "Decreases sumoylation of SNF1.", "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "PubMed", "id": "24108357", "url": "https://glygen.org/publication/PubMed/24108357" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P06782-1.537.537", "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": "P06782-1.84.84", "start_pos": 84, "end_pos": 84, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mutational analysis of the Saccharomyces cerevisiae SNF1 protein kinase and evidence for functional interaction with the SNF4 protein.", "journal": "Molecular and cellular biology", "date": "1989-11", "authors": "Celenza J L, Carlson M", "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "reference": [ { "type": "PubMed", "id": "2557546", "url": "https://glygen.org/publication/PubMed/2557546" } ] }, { "title": "Regulation of Snf1 kinase. Activation requires phosphorylation of threonine 210 by an upstream kinase as well as a distinct step mediated by the Snf4 subunit.", "journal": "The Journal of biological chemistry", "date": "2001-09-28", "authors": "McCartney R R, Schmidt M C", "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "11486005", "url": "https://glygen.org/publication/PubMed/11486005" } ] } ], "crossref": [ { "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "2557546", "url": "https://glygen.org/publication/PubMed/2557546", "database": "PubMed", "categories": [ "Other" ] }, { "id": "11486005", "url": "https://glygen.org/publication/PubMed/11486005", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "GSFGKVKLAYHTTTGQKVAL", "down_seq": "IINKKVLAKSDMQGRIEREI", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "R", "comment": "Inactivates the kinase activity without affecting protein levels.", "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "PubMed", "id": "2557546", "url": "https://glygen.org/publication/PubMed/2557546" }, { "database": "PubMed", "id": "11486005", "url": "https://glygen.org/publication/PubMed/11486005" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "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": "P06782-1.199.199", "start_pos": 199, "end_pos": 199, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782", "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": "KPENLLLDEHLNVKIADFGL", "down_seq": "NIMTDGNFLKTSCGSPNYAA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser199" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P06782-1.203.203", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P06782-1.210.210", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P06782-1.211.211", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P06782-1.214.214", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P06782-1.217.217", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06782-1.203.203", "start_pos": 203, "end_pos": 203, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "common_name": "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": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782", "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": "T", "start_aa": "T", "up_seq": "LLLDEHLNVKIADFGLSNIM", "down_seq": "DGNFLKTSCGSPNYAAPEVI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" }, { "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": "Thr203" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P06782-1.199.199", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P06782-1.210.210", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P06782-1.211.211", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P06782-1.214.214", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P06782-1.217.217", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06782-1.211.211", "start_pos": 211, "end_pos": 211, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "common_name": "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": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885", "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": "VKIADFGLSNIMTDGNFLKT", "down_seq": "CGSPNYAAPEVISGKLYAGP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885" }, { "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": "Ser211" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P06782-1.199.199", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P06782-1.203.203", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P06782-1.210.210", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P06782-1.214.214", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P06782-1.217.217", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06782-1.214.214", "start_pos": 214, "end_pos": 214, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "common_name": "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": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885", "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": "ADFGLSNIMTDGNFLKTSCG", "down_seq": "PNYAAPEVISGKLYAGPEVD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser214" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P06782-1.199.199", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P06782-1.203.203", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P06782-1.210.210", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P06782-1.211.211", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P06782-1.217.217", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06782-1.217.217", "start_pos": 217, "end_pos": 217, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782", "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": "GLSNIMTDGNFLKTSCGSPN", "down_seq": "AAPEVISGKLYAGPEVDVWS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr217" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P06782-1.199.199", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P06782-1.203.203", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P06782-1.210.210", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P06782-1.211.211", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P06782-1.214.214", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06782-1.256.256", "start_pos": 256, "end_pos": 256, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782", "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": "WSCGVILYVMLCRRLPFDDE", "down_seq": "IPVLFKNISNGVYTLPKFLS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser256" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06782-1.364.364", "start_pos": 364, "end_pos": 364, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782", "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": "IDDNLVNILSSTMGYEKDEI", "down_seq": "ESLESSEDTPAFNEIRDAYM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Tyr364" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P06782-1.357.357", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P06782-1.367.367", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P06782-1.373.373", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P06782-1.383.383", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06782-1.373.373", "start_pos": 373, "end_pos": 373, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782", "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": "SSTMGYEKDEIYESLESSED", "down_seq": "PAFNEIRDAYMLIKENKSLI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr373" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P06782-1.357.357", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P06782-1.364.364", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P06782-1.367.367", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P06782-1.383.383", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P06782-1.391.391", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06782-1.383.383", "start_pos": 383, "end_pos": 383, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782", "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": "IYESLESSEDTPAFNEIRDA", "down_seq": "MLIKENKSLIKDMKANKSVS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Tyr383" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P06782-1.364.364", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P06782-1.367.367", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P06782-1.373.373", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P06782-1.391.391", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P06782-1.401.401", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P06782-1.403.403", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06782-1.391.391", "start_pos": 391, "end_pos": 391, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EDTPAFNEIRDAYMLIKENK", "down_seq": "LIKDMKANKSVSDELDTFLS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser391" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P06782-1.373.373", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P06782-1.383.383", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P06782-1.401.401", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P06782-1.403.403", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P06782-1.408.408", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P06782-1.411.411", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06782-1.401.401", "start_pos": 401, "end_pos": 401, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "common_name": "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": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782", "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": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885", "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": "DAYMLIKENKSLIKDMKANK", "down_seq": "VSDELDTFLSQSPPTFQQQS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" }, { "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": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser401" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P06782-1.383.383", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P06782-1.391.391", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06782-1.403.403", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P06782-1.408.408", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P06782-1.411.411", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P06782-1.413.413", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P06782-1.416.416", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P06782-1.421.421", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06782-1.403.403", "start_pos": 403, "end_pos": 403, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782", "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": "YMLIKENKSLIKDMKANKSV", "down_seq": "DELDTFLSQSPPTFQQQSKS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser403" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P06782-1.383.383", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P06782-1.391.391", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06782-1.401.401", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P06782-1.408.408", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P06782-1.411.411", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P06782-1.413.413", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P06782-1.416.416", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P06782-1.421.421", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06782-1.408.408", "start_pos": 408, "end_pos": 408, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885", "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": "ENKSLIKDMKANKSVSDELD", "down_seq": "FLSQSPPTFQQQSKSHQKSQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr408" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P06782-1.391.391", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P06782-1.401.401", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P06782-1.403.403", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P06782-1.411.411", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P06782-1.413.413", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P06782-1.416.416", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P06782-1.421.421", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P06782-1.427.427", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06782-1.411.411", "start_pos": 411, "end_pos": 411, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "common_name": "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": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885", "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": "SLIKDMKANKSVSDELDTFL", "down_seq": "QSPPTFQQQSKSHQKSQVDH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser411" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P06782-1.391.391", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P06782-1.401.401", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P06782-1.403.403", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P06782-1.408.408", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06782-1.413.413", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P06782-1.416.416", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P06782-1.421.421", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P06782-1.427.427", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06782-1.413.413", "start_pos": 413, "end_pos": 413, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "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": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782", "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782", "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": "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": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885", "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": "IKDMKANKSVSDELDTFLSQ", "down_seq": "PPTFQQQSKSHQKSQVDHET", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885" }, { "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": "Ser413" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P06782-1.401.401", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P06782-1.403.403", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P06782-1.408.408", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06782-1.411.411", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P06782-1.416.416", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P06782-1.421.421", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P06782-1.427.427", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P06782-1.433.433", "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": 13 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06782-1.416.416", "start_pos": 416, "end_pos": 416, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "common_name": "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": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885", "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": "MKANKSVSDELDTFLSQSPP", "down_seq": "FQQQSKSHQKSQVDHETAKQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr416" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P06782-1.401.401", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P06782-1.403.403", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P06782-1.408.408", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P06782-1.411.411", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P06782-1.413.413", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P06782-1.421.421", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P06782-1.427.427", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P06782-1.433.433", "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": "P06782-1.421.421", "start_pos": 421, "end_pos": 421, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885", "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": "SVSDELDTFLSQSPPTFQQQ", "down_seq": "KSHQKSQVDHETAKQHARRM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser421" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P06782-1.401.401", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P06782-1.403.403", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P06782-1.408.408", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P06782-1.411.411", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P06782-1.413.413", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P06782-1.416.416", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P06782-1.427.427", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P06782-1.433.433", "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": "P06782-1.427.427", "start_pos": 427, "end_pos": 427, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782", "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": "DTFLSQSPPTFQQQSKSHQK", "down_seq": "QVDHETAKQHARRMASAITQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser427" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P06782-1.408.408", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P06782-1.411.411", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P06782-1.413.413", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P06782-1.416.416", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P06782-1.421.421", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P06782-1.433.433", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P06782-1.443.443", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06782-1.433.433", "start_pos": 433, "end_pos": 433, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782", "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": "SPPTFQQQSKSHQKSQVDHE", "down_seq": "AKQHARRMASAITQQRTYHQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr433" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P06782-1.413.413", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P06782-1.416.416", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P06782-1.421.421", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P06782-1.427.427", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P06782-1.443.443", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06782-1.443.443", "start_pos": 443, "end_pos": 443, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885", "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": "SHQKSQVDHETAKQHARRMA", "down_seq": "AITQQRTYHQSPFMDQYKEE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser443" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P06782-1.427.427", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P06782-1.433.433", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P06782-1.454.454", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P06782-1.460.460", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06782-1.454.454", "start_pos": 454, "end_pos": 454, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782", "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": "AKQHARRMASAITQQRTYHQ", "down_seq": "PFMDQYKEEDSTVSILPTSL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser454" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P06782-1.443.443", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P06782-1.460.460", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06782-1.45.45", "start_pos": 45, "end_pos": 45, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782", "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": "HHHHHHGHGGSNSTLNNPKS", "down_seq": "LADGAHIGNYQIVKTLGEGS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser45" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "upstream", "id": "P06782-1.53.53", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P06782-1.60.60", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06782-1.460.460", "start_pos": 460, "end_pos": 460, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782", "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": "RMASAITQQRTYHQSPFMDQ", "down_seq": "KEEDSTVSILPTSLPQIHRA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Tyr460" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P06782-1.443.443", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P06782-1.454.454", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06782-1.487.487", "start_pos": 487, "end_pos": 487, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "common_name": "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": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782", "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": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885", "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": "VSILPTSLPQIHRANMLAQG", "down_seq": "PAASKISPLVTKKSKTRWHF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" }, { "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": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser487" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "upstream", "id": "P06782-1.494.494", "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": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06782-1.494.494", "start_pos": 494, "end_pos": 494, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782", "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": "LPQIHRANMLAQGSPAASKI", "down_seq": "PLVTKKSKTRWHFGIRSRSY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" }, { "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": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P06782-1.487.487", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06782-1.537.537", "start_pos": 537, "end_pos": 537, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885", "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": "DVMGEIYIALKNLGAEWAKP", "down_seq": "EEDLWTIKLRWKYDIGNKTN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser537" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "upstream", "id": "P06782-1.549.549", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06782-1.60.60", "start_pos": 60, "end_pos": 60, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782", "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": "NNPKSSLADGAHIGNYQIVK", "down_seq": "LGEGSFGKVKLAYHTTTGQK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr60" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P06782-1.45.45", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P06782-1.53.53", "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": "P06782-1.630.630", "start_pos": 630, "end_pos": 630, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782", "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": "FSAYPFLHLTTKLIMELAVN", "down_seq": "QSN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser630" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P06782-1.632.632", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06782-1.632.632", "start_pos": 632, "end_pos": 632, "uniprot_canonical_ac": "P06782-1", "length": 633, "uniprot_id": "SNF1_YEAST", "protein_name": "Carbon catabolite-derepressing protein kinase", "refseq_ac": "NP_010765", "refseq_name": "AMP-activated serine/threonine-protein kinase catalytic subunit SNF1", "gene_name": "SNF1", "gene_names_uniprotkb": "SNF1; CAT1; CCR1; D8035.20; GLC2; PAS14", "gene_names_refseq": "CAT1; CCR1; GLC2; HAF3; PAS14; SNF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "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": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782", "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": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885", "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": "AYPFLHLTTKLIMELAVNSQ", "down_seq": "", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P06782", "url": "https://www.uniprot.org/uniprotkb/P06782" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P06782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06782" }, { "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": "S000002885", "url": "https://www.yeastgenome.org/locus/S000002885" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser632" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "210", "end_pos": "210" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P06782-1.630.630", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06783-1.412.412", "start_pos": 412, "end_pos": 412, "uniprot_canonical_ac": "P06783-1", "length": 470, "uniprot_id": "STE3_YEAST", "protein_name": "Pheromone a factor receptor", "refseq_ac": "NP_012743", "refseq_name": "Ste3p", "gene_name": "STE3", "gene_names_uniprotkb": "STE3", "gene_names_refseq": "DAF2; STE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06783", "url": "https://www.uniprot.org/uniprotkb/P06783" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06783", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06783" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001661", "url": "https://www.yeastgenome.org/locus/S000001661", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06783", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06783", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ILDEIDLKESRHIPYVTQGQ", "down_seq": "FDDEISLGGFSKVTLDYSEK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001661", "url": "https://www.yeastgenome.org/locus/S000001661" }, { "database": "iPTMnet", "id": "P06783", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06783" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser412" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "412", "end_pos": "412" }, { "start_pos": "430", "end_pos": "430" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "upstream", "id": "P06783-1.430.430", "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": "P06783-1.430.430", "start_pos": 430, "end_pos": 430, "uniprot_canonical_ac": "P06783-1", "length": 470, "uniprot_id": "STE3_YEAST", "protein_name": "Pheromone a factor receptor", "refseq_ac": "NP_012743", "refseq_name": "Ste3p", "gene_name": "STE3", "gene_names_uniprotkb": "STE3", "gene_names_refseq": "DAF2; STE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06783", "url": "https://www.uniprot.org/uniprotkb/P06783" } ], "common_name": "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": "P06783", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06783" } ], "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": "P06783", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06783" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001661", "url": "https://www.yeastgenome.org/locus/S000001661", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06783", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06783", "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": "GQSFDDEISLGGFSKVTLDY", "down_seq": "EKLHNSASSNFEGESLCYSP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001661", "url": "https://www.yeastgenome.org/locus/S000001661" }, { "database": "iPTMnet", "id": "P06783", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06783" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser430" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "412", "end_pos": "412" }, { "start_pos": "430", "end_pos": "430" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P06783-1.412.412", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06784-1.137.137", "start_pos": 137, "end_pos": 137, "uniprot_canonical_ac": "P06784-1", "length": 515, "uniprot_id": "STE7_YEAST", "protein_name": "Serine/threonine-protein kinase STE7", "refseq_ac": "NP_010122", "refseq_name": "mitogen-activated protein kinase kinase STE7", "gene_name": "STE7", "gene_names_uniprotkb": "STE7; D1525", "gene_names_refseq": "STE7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06784", "url": "https://www.uniprot.org/uniprotkb/P06784" } ], "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": "PCIIDAYSNNFGLSPSSTNS", "down_seq": "PSTIQGLSNIATPVENEHSI", "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": "Thr137", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "137", "end_pos": "137" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "363", "end_pos": "363" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "149", "end_pos": "149" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "471", "end_pos": "471" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "upstream", "id": "P06784-1.149.149", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "P06784-1.353.353", "start_pos": 353, "end_pos": 353, "uniprot_canonical_ac": "P06784-1", "length": 515, "uniprot_id": "STE7_YEAST", "protein_name": "Serine/threonine-protein kinase STE7", "refseq_ac": "NP_010122", "refseq_name": "mitogen-activated protein kinase kinase STE7", "gene_name": "STE7", "gene_names_uniprotkb": "STE7; D1525", "gene_names_refseq": "STE7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06784", "url": "https://www.uniprot.org/uniprotkb/P06784" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Activation of MEK family kinases requires phosphorylation of two conserved Ser/Thr residues.", "journal": "The EMBO journal", "date": "1994", "authors": "Zheng CF, Guan KL", "evidence": [ { "database": "UniProtKB", "id": "P06784", "url": "https://www.uniprot.org/uniprotkb/P06784" }, { "database": "iPTMnet", "id": "P06784", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06784" } ], "reference": [ { "type": "PubMed", "id": "8131746", "url": "https://glygen.org/publication/PubMed/8131746" } ] } ], "crossref": [ { "id": "P06784", "url": "https://www.uniprot.org/uniprotkb/P06784", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "8131746", "url": "https://glygen.org/publication/PubMed/8131746", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KPSNVLINSKGQIKLCDFGV", "down_seq": "KKLINSIADTFVGTSTYMSP", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "A", "comment": "No loss of activity.", "evidence": [ { "database": "UniProtKB", "id": "P06784", "url": "https://www.uniprot.org/uniprotkb/P06784" }, { "database": "PubMed", "id": "8131746", "url": "https://glygen.org/publication/PubMed/8131746" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "137", "end_pos": "137" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "363", "end_pos": "363" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "149", "end_pos": "149" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "471", "end_pos": "471" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P06784-1.359.359", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P06784-1.363.363", "categories": [ "mutagenesis_flag", "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": "P06784-1.359.359", "start_pos": 359, "end_pos": 359, "uniprot_canonical_ac": "P06784-1", "length": 515, "uniprot_id": "STE7_YEAST", "protein_name": "Serine/threonine-protein kinase STE7", "refseq_ac": "NP_010122", "refseq_name": "mitogen-activated protein kinase kinase STE7", "gene_name": "STE7", "gene_names_uniprotkb": "STE7; D1525", "gene_names_refseq": "STE7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06784", "url": "https://www.uniprot.org/uniprotkb/P06784" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Activation of MEK family kinases requires phosphorylation of two conserved Ser/Thr residues.", "journal": "The EMBO journal", "date": "1994", "authors": "Zheng CF, Guan KL", "evidence": [ { "database": "UniProtKB", "id": "P06784", "url": "https://www.uniprot.org/uniprotkb/P06784" }, { "database": "iPTMnet", "id": "P06784", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06784" } ], "reference": [ { "type": "PubMed", "id": "8131746", "url": "https://glygen.org/publication/PubMed/8131746" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06784", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06784" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06784", "url": "https://www.uniprot.org/uniprotkb/P06784", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "8131746", "url": "https://glygen.org/publication/PubMed/8131746", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P06784", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06784", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000002318", "url": "https://www.yeastgenome.org/locus/S000002318", "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": "INSKGQIKLCDFGVSKKLIN", "down_seq": "IADTFVGTSTYMSPERIQGN", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "A", "comment": "Inactivation.", "evidence": [ { "database": "UniProtKB", "id": "P06784", "url": "https://www.uniprot.org/uniprotkb/P06784" }, { "database": "PubMed", "id": "8131746", "url": "https://glygen.org/publication/PubMed/8131746" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P06784", "url": "https://www.uniprot.org/uniprotkb/P06784" }, { "database": "PubMed", "id": "8131746", "url": "https://glygen.org/publication/PubMed/8131746" }, { "database": "iPTMnet", "id": "P06784", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06784" }, { "database": "SGD", "id": "S000002318", "url": "https://www.yeastgenome.org/locus/S000002318" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser359" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "137", "end_pos": "137" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "363", "end_pos": "363" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "149", "end_pos": "149" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "471", "end_pos": "471" } ] } ], "categories": [ "mutagenesis_flag", "phosphorylation_flag" ], "glycosylation": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P06784-1.353.353", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P06784-1.363.363", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06784-1.363.363", "start_pos": 363, "end_pos": 363, "uniprot_canonical_ac": "P06784-1", "length": 515, "uniprot_id": "STE7_YEAST", "protein_name": "Serine/threonine-protein kinase STE7", "refseq_ac": "NP_010122", "refseq_name": "mitogen-activated protein kinase kinase STE7", "gene_name": "STE7", "gene_names_uniprotkb": "STE7; D1525", "gene_names_refseq": "STE7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06784", "url": "https://www.uniprot.org/uniprotkb/P06784" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Activation of MEK family kinases requires phosphorylation of two conserved Ser/Thr residues.", "journal": "The EMBO journal", "date": "1994", "authors": "Zheng CF, Guan KL", "evidence": [ { "database": "UniProtKB", "id": "P06784", "url": "https://www.uniprot.org/uniprotkb/P06784" }, { "database": "iPTMnet", "id": "P06784", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06784" } ], "reference": [ { "type": "PubMed", "id": "8131746", "url": "https://glygen.org/publication/PubMed/8131746" } ] }, { "title": "Reconstitution of a yeast protein kinase cascade in vitro: activation of the yeast MEK homologue STE7 by STE11.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-04-12", "authors": "Neiman A M, Herskowitz I", "evidence": [ { "database": "iPTMnet", "id": "P06784", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06784" } ], "reference": [ { "type": "PubMed", "id": "8159759", "url": "https://glygen.org/publication/PubMed/8159759" } ] } ], "crossref": [ { "id": "P06784", "url": "https://www.uniprot.org/uniprotkb/P06784", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "8131746", "url": "https://glygen.org/publication/PubMed/8131746", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P06784", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06784", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "8159759", "url": "https://glygen.org/publication/PubMed/8159759", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002318", "url": "https://www.yeastgenome.org/locus/S000002318", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "GQIKLCDFGVSKKLINSIAD", "down_seq": "FVGTSTYMSPERIQGNVYSI", "mutagenesis": [ { "sequence_org": "T", "sequence_mut": "A", "comment": "Inactivation.", "evidence": [ { "database": "UniProtKB", "id": "P06784", "url": "https://www.uniprot.org/uniprotkb/P06784" }, { "database": "PubMed", "id": "8131746", "url": "https://glygen.org/publication/PubMed/8131746" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P06784", "url": "https://www.uniprot.org/uniprotkb/P06784" }, { "database": "PubMed", "id": "8131746", "url": "https://glygen.org/publication/PubMed/8131746" }, { "database": "iPTMnet", "id": "P06784", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06784" }, { "database": "PubMed", "id": "8159759", "url": "https://glygen.org/publication/PubMed/8159759" }, { "database": "SGD", "id": "S000002318", "url": "https://www.yeastgenome.org/locus/S000002318" } ], "site_lbl": "Thr363" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "137", "end_pos": "137" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "363", "end_pos": "363" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "149", "end_pos": "149" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "471", "end_pos": "471" } ] } ], "categories": [ "mutagenesis_flag", "phosphorylation_flag" ], "glycosylation": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P06784-1.353.353", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P06784-1.359.359", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06784-1.149.149", "start_pos": 149, "end_pos": 149, "uniprot_canonical_ac": "P06784-1", "length": 515, "uniprot_id": "STE7_YEAST", "protein_name": "Serine/threonine-protein kinase STE7", "refseq_ac": "NP_010122", "refseq_name": "mitogen-activated protein kinase kinase STE7", "gene_name": "STE7", "gene_names_uniprotkb": "STE7; D1525", "gene_names_refseq": "STE7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06784", "url": "https://www.uniprot.org/uniprotkb/P06784" } ], "common_name": "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": "P06784", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06784" } ], "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": "P06784", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06784" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06784", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06784", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002318", "url": "https://www.yeastgenome.org/locus/S000002318", "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": "LSPSSTNSTPSTIQGLSNIA", "down_seq": "PVENEHSISLPPLEESLSPA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06784", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06784" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000002318", "url": "https://www.yeastgenome.org/locus/S000002318" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr149" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "137", "end_pos": "137" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "363", "end_pos": "363" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "149", "end_pos": "149" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "471", "end_pos": "471" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P06784-1.137.137", "categories": [ "glycosylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P06784-1.167.167", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06784-1.167.167", "start_pos": 167, "end_pos": 167, "uniprot_canonical_ac": "P06784-1", "length": 515, "uniprot_id": "STE7_YEAST", "protein_name": "Serine/threonine-protein kinase STE7", "refseq_ac": "NP_010122", "refseq_name": "mitogen-activated protein kinase kinase STE7", "gene_name": "STE7", "gene_names_uniprotkb": "STE7; D1525", "gene_names_refseq": "STE7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06784", "url": "https://www.uniprot.org/uniprotkb/P06784" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06784", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06784" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002318", "url": "https://www.yeastgenome.org/locus/S000002318", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06784", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06784", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IATPVENEHSISLPPLEESL", "down_seq": "PAAADLKDTLSGTSNGNYIQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002318", "url": "https://www.yeastgenome.org/locus/S000002318" }, { "database": "iPTMnet", "id": "P06784", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06784" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser167" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "137", "end_pos": "137" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "363", "end_pos": "363" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "149", "end_pos": "149" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "471", "end_pos": "471" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P06784-1.149.149", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06784-1.426.426", "start_pos": 426, "end_pos": 426, "uniprot_canonical_ac": "P06784-1", "length": 515, "uniprot_id": "STE7_YEAST", "protein_name": "Serine/threonine-protein kinase STE7", "refseq_ac": "NP_010122", "refseq_name": "mitogen-activated protein kinase kinase STE7", "gene_name": "STE7", "gene_names_uniprotkb": "STE7; D1525", "gene_names_refseq": "STE7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06784", "url": "https://www.uniprot.org/uniprotkb/P06784" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06784", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06784" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002318", "url": "https://www.yeastgenome.org/locus/S000002318", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06784", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06784", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GHNDTPDGILDLLQRIVNEP", "down_seq": "PRLPKDRIYSKEMTDFVNRC", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002318", "url": "https://www.yeastgenome.org/locus/S000002318" }, { "database": "iPTMnet", "id": "P06784", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06784" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser426" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "137", "end_pos": "137" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "363", "end_pos": "363" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "149", "end_pos": "149" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "471", "end_pos": "471" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06784-1.471.471", "start_pos": 471, "end_pos": 471, "uniprot_canonical_ac": "P06784-1", "length": 515, "uniprot_id": "STE7_YEAST", "protein_name": "Serine/threonine-protein kinase STE7", "refseq_ac": "NP_010122", "refseq_name": "mitogen-activated protein kinase kinase STE7", "gene_name": "STE7", "gene_names_uniprotkb": "STE7; D1525", "gene_names_refseq": "STE7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06784", "url": "https://www.uniprot.org/uniprotkb/P06784" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "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": "P06784", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06784" } ], "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": "P06784", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06784" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06784", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06784", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002318", "url": "https://www.yeastgenome.org/locus/S000002318", "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": "ERERSSIHELLHHDLIMKYV", "down_seq": "PSKDDKFRHWCRKIKSKIKE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06784", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06784" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002318", "url": "https://www.yeastgenome.org/locus/S000002318" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser471" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "137", "end_pos": "137" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "363", "end_pos": "363" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "149", "end_pos": "149" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "471", "end_pos": "471" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06785-1.96.96", "start_pos": 96, "end_pos": 96, "uniprot_canonical_ac": "P06785-1", "length": 304, "uniprot_id": "TYSY_YEAST", "protein_name": "Thymidylate synthase", "refseq_ac": "NP_014717", "refseq_name": "thymidylate synthase", "gene_name": "CDC21", "gene_names_uniprotkb": "CDC21; CRT9; TMP1; YOR29-25", "gene_names_refseq": "CDC21; CRT9; TMP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06785", "url": "https://www.uniprot.org/uniprotkb/P06785" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06785" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005600", "url": "https://www.yeastgenome.org/locus/S000005600", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06785", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GDTDANLLSEQGVKIWDGNG", "down_seq": "REYLDKMGFKDRKVGDLGPV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005600", "url": "https://www.yeastgenome.org/locus/S000005600" }, { "database": "iPTMnet", "id": "P06785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06785" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser96" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06786-1.333.336", "start_pos": 333, "end_pos": 336, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "KKKK", "start_aa": "K", "up_seq": "GGTHVNYITDQIVKKISEIL", "down_seq": "KKSVKSFQIKNNMFIFINCL", "mutagenesis": [ { "sequence_org": "KKKK", "sequence_mut": "AAAA", "comment": "Reduced enzyme activity; abolishes stimulation of ATPase activity upon DNA binding.", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ] }, { "sequence_org": "KKKK", "sequence_mut": "AEEA", "comment": "Strongly reduced enzyme activity; abolishes stimulation of ATPase activity upon DNA binding.", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "P06786-1.690.690", "start_pos": 690, "end_pos": 690, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of active site residues in the `GyrA` half of yeast DNA topoisomerase II.", "journal": "The Journal of biological chemistry", "date": "1998-08-07", "authors": "Liu Q, Wang J C", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "reference": [ { "type": "PubMed", "id": "9685374", "url": "https://glygen.org/publication/PubMed/9685374" } ] } ], "crossref": [ { "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "9685374", "url": "https://glygen.org/publication/PubMed/9685374", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "IPISDFINKELILFSLADNI", "down_seq": "SIPNVLDGFKPGQRKVLYGC", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "A", "comment": "Loss of enzyme activity.", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "PubMed", "id": "9685374", "url": "https://glygen.org/publication/PubMed/9685374" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "upstream", "id": "P06786-1.697.697", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P06786-1.700.700", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P06786-1.704.704", "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": "P06786-1.697.697", "start_pos": 697, "end_pos": 697, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of active site residues in the `GyrA` half of yeast DNA topoisomerase II.", "journal": "The Journal of biological chemistry", "date": "1998-08-07", "authors": "Liu Q, Wang J C", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "reference": [ { "type": "PubMed", "id": "9685374", "url": "https://glygen.org/publication/PubMed/9685374" } ] } ], "crossref": [ { "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "9685374", "url": "https://glygen.org/publication/PubMed/9685374", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "NKELILFSLADNIRSIPNVL", "down_seq": "GFKPGQRKVLYGCFKKNLKS", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "Strongly reduced enzyme activity.", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "PubMed", "id": "9685374", "url": "https://glygen.org/publication/PubMed/9685374" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P06786-1.690.690", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P06786-1.700.700", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P06786-1.704.704", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P06786-1.717.717", "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": "P06786-1.700.700", "start_pos": 700, "end_pos": 700, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of active site residues in the `GyrA` half of yeast DNA topoisomerase II.", "journal": "The Journal of biological chemistry", "date": "1998-08-07", "authors": "Liu Q, Wang J C", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "reference": [ { "type": "PubMed", "id": "9685374", "url": "https://glygen.org/publication/PubMed/9685374" } ] } ], "crossref": [ { "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "9685374", "url": "https://glygen.org/publication/PubMed/9685374", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "LILFSLADNIRSIPNVLDGF", "down_seq": "PGQRKVLYGCFKKNLKSELK", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "Strongly reduced enzyme activity.", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "PubMed", "id": "9685374", "url": "https://glygen.org/publication/PubMed/9685374" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P06786-1.690.690", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P06786-1.697.697", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P06786-1.704.704", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P06786-1.717.717", "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": "P06786-1.704.704", "start_pos": 704, "end_pos": 704, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of active site residues in the `GyrA` half of yeast DNA topoisomerase II.", "journal": "The Journal of biological chemistry", "date": "1998-08-07", "authors": "Liu Q, Wang J C", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "reference": [ { "type": "PubMed", "id": "9685374", "url": "https://glygen.org/publication/PubMed/9685374" } ] } ], "crossref": [ { "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "9685374", "url": "https://glygen.org/publication/PubMed/9685374", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "SLADNIRSIPNVLDGFKPGQ", "down_seq": "KVLYGCFKKNLKSELKVAQL", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "A", "comment": "Strongly reduced enzyme activity.", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "PubMed", "id": "9685374", "url": "https://glygen.org/publication/PubMed/9685374" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P06786-1.690.690", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P06786-1.697.697", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P06786-1.700.700", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P06786-1.717.717", "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": "P06786-1.736.736", "start_pos": 736, "end_pos": 736, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of active site residues in the `GyrA` half of yeast DNA topoisomerase II.", "journal": "The Journal of biological chemistry", "date": "1998-08-07", "authors": "Liu Q, Wang J C", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "reference": [ { "type": "PubMed", "id": "9685374", "url": "https://glygen.org/publication/PubMed/9685374" } ] } ], "crossref": [ { "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "9685374", "url": "https://glygen.org/publication/PubMed/9685374", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "H", "start_aa": "H", "up_seq": "KSELKVAQLAPYVSECTAYH", "down_seq": "GEQSLAQTIIGLAQNFVGSN", "mutagenesis": [ { "sequence_org": "H", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "PubMed", "id": "9685374", "url": "https://glygen.org/publication/PubMed/9685374" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P06786-1.717.717", "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": "P06786-1.781.781", "start_pos": 781, "end_pos": 781, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of active site residues in the `GyrA` half of yeast DNA topoisomerase II.", "journal": "The Journal of biological chemistry", "date": "1998-08-07", "authors": "Liu Q, Wang J C", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "reference": [ { "type": "PubMed", "id": "9685374", "url": "https://glygen.org/publication/PubMed/9685374" } ] } ], "crossref": [ { "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "9685374", "url": "https://glygen.org/publication/PubMed/9685374", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "LLPNGAFGTRATGGKDAAAA", "down_seq": "YIYTELNKLTRKIFHPADDP", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "A", "comment": "Strongly reduced enzyme activity.", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "PubMed", "id": "9685374", "url": "https://glygen.org/publication/PubMed/9685374" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P06786-1.782.782", "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": "P06786-1.782.782", "start_pos": 782, "end_pos": 782, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of active site residues in the `GyrA` half of yeast DNA topoisomerase II.", "journal": "The Journal of biological chemistry", "date": "1998-08-07", "authors": "Liu Q, Wang J C", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "reference": [ { "type": "PubMed", "id": "9685374", "url": "https://glygen.org/publication/PubMed/9685374" } ] } ], "crossref": [ { "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "9685374", "url": "https://glygen.org/publication/PubMed/9685374", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "LPNGAFGTRATGGKDAAAAR", "down_seq": "IYTELNKLTRKIFHPADDPL", "mutagenesis": [ { "sequence_org": "Y", "sequence_mut": "F", "comment": "Loss of enzyme activity.", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "PubMed", "id": "9685374", "url": "https://glygen.org/publication/PubMed/9685374" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P06786-1.781.781", "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": "P06786-1.828.828", "start_pos": 828, "end_pos": 828, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of active site residues in the `GyrA` half of yeast DNA topoisomerase II.", "journal": "The Journal of biological chemistry", "date": "1998-08-07", "authors": "Liu Q, Wang J C", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "reference": [ { "type": "PubMed", "id": "9685374", "url": "https://glygen.org/publication/PubMed/9685374" } ] } ], "crossref": [ { "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "9685374", "url": "https://glygen.org/publication/PubMed/9685374", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "EDEKTVEPEWYLPILPMILV", "down_seq": "GAEGIGTGWSTYIPPFNPLE", "mutagenesis": [ { "sequence_org": "N", "sequence_mut": "A", "comment": "Strongly reduced enzyme activity.", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "PubMed", "id": "9685374", "url": "https://glygen.org/publication/PubMed/9685374" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06786-1.1086.1086", "start_pos": 1086, "end_pos": 1086, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Casein kinase II phosphorylates the eukaryote-specific C-terminal domain of topoisomerase II in vivo.", "journal": "The EMBO journal", "date": "1992-05", "authors": "Cardenas M E, Dang Q, Glover C V, Gasser S M", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "1316274", "url": "https://glygen.org/publication/PubMed/1316274" } ] } ], "crossref": [ { "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "1316274", "url": "https://glygen.org/publication/PubMed/1316274", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "PYYGSPNDEIAEQINDVKGA", "down_seq": "SDEEDEESSHEDTENVINGP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine; by CK2", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032" }, { "database": "PubMed", "id": "1316274", "url": "https://glygen.org/publication/PubMed/1316274" } ], "site_lbl": "Thr1086" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P06786-1.1087.1087", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P06786-1.1094.1094", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06786-1.1087.1087", "start_pos": 1087, "end_pos": 1087, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Casein kinase II phosphorylates the eukaryote-specific C-terminal domain of topoisomerase II in vivo.", "journal": "The EMBO journal", "date": "1992-05", "authors": "Cardenas M E, Dang Q, Glover C V, Gasser S M", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "1316274", "url": "https://glygen.org/publication/PubMed/1316274" } ] } ], "crossref": [ { "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "1316274", "url": "https://glygen.org/publication/PubMed/1316274", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YYGSPNDEIAEQINDVKGAT", "down_seq": "DEEDEESSHEDTENVINGPE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine; by CK2", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032" }, { "database": "PubMed", "id": "1316274", "url": "https://glygen.org/publication/PubMed/1316274" } ], "site_lbl": "Ser1087" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P06786-1.1086.1086", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P06786-1.1094.1094", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06786-1.1094.1094", "start_pos": 1094, "end_pos": 1094, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EIAEQINDVKGATSDEEDEE", "down_seq": "SHEDTENVINGPEELYGTYE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032" } ], "site_lbl": "Ser1094" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P06786-1.1086.1086", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P06786-1.1087.1087", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06786-1.1250.1250", "start_pos": 1250, "end_pos": 1250, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "title": "SUMO is a pervasive regulator of meiosis.", "journal": "eLife", "date": "2021-01-27", "authors": "Bhagwat Nikhil R, Owens Shannon N, Ito Masaru, Boinapalli Jay V, Poa Philip, Ditzel Alexander, Kopparapu Srujan, Mahalawat Meghan, Davies Owen Richard, Collins Sean R, Johnson Jeffrey R, Krogan Nevan J, Hunter Neil", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ] } ], "crossref": [ { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "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": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032", "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": "33502312", "url": "https://glygen.org/publication/PubMed/33502312", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "LLEQKLVTKSKAPTKIKKEK", "down_seq": "PSVSETKTEEEENAPSSTSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "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": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032" }, { "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": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ], "site_lbl": "Thr1250" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P06786-1.1252.1252", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P06786-1.1254.1254", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P06786-1.1256.1256", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P06786-1.1258.1258", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P06786-1.1266.1266", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P06786-1.1267.1267", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P06786-1.1268.1268", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P06786-1.1269.1269", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P06786-1.1270.1270", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P06786-1.1252.1252", "start_pos": 1252, "end_pos": 1252, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "title": "SUMO is a pervasive regulator of meiosis.", "journal": "eLife", "date": "2021-01-27", "authors": "Bhagwat Nikhil R, Owens Shannon N, Ito Masaru, Boinapalli Jay V, Poa Philip, Ditzel Alexander, Kopparapu Srujan, Mahalawat Meghan, Davies Owen Richard, Collins Sean R, Johnson Jeffrey R, Krogan Nevan J, Hunter Neil", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ] } ], "crossref": [ { "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EQKLVTKSKAPTKIKKEKTP", "down_seq": "VSETKTEEEENAPSSTSSSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "database": "SGD", "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" }, { "database": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ], "site_lbl": "Ser1252" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P06786-1.1250.1250", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06786-1.1254.1254", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P06786-1.1256.1256", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P06786-1.1258.1258", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P06786-1.1266.1266", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P06786-1.1267.1267", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P06786-1.1268.1268", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P06786-1.1269.1269", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P06786-1.1270.1270", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P06786-1.1272.1272", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P06786-1.1254.1254", "start_pos": 1254, "end_pos": 1254, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "SUMO is a pervasive regulator of meiosis.", "journal": "eLife", "date": "2021-01-27", "authors": "Bhagwat Nikhil R, Owens Shannon N, Ito Masaru, Boinapalli Jay V, Poa Philip, Ditzel Alexander, Kopparapu Srujan, Mahalawat Meghan, Davies Owen Richard, Collins Sean R, Johnson Jeffrey R, Krogan Nevan J, Hunter Neil", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ] } ], "crossref": [ { "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KLVTKSKAPTKIKKEKTPSV", "down_seq": "ETKTEEEENAPSSTSSSSIF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ], "site_lbl": "Ser1254" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P06786-1.1250.1250", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06786-1.1252.1252", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06786-1.1256.1256", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P06786-1.1258.1258", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P06786-1.1266.1266", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P06786-1.1267.1267", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P06786-1.1268.1268", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P06786-1.1269.1269", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P06786-1.1270.1270", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P06786-1.1272.1272", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06786-1.1256.1256", "start_pos": 1256, "end_pos": 1256, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "SUMO is a pervasive regulator of meiosis.", "journal": "eLife", "date": "2021-01-27", "authors": "Bhagwat Nikhil R, Owens Shannon N, Ito Masaru, Boinapalli Jay V, Poa Philip, Ditzel Alexander, Kopparapu Srujan, Mahalawat Meghan, Davies Owen Richard, Collins Sean R, Johnson Jeffrey R, Krogan Nevan J, Hunter Neil", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ] } ], "crossref": [ { "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "VTKSKAPTKIKKEKTPSVSE", "down_seq": "KTEEEENAPSSTSSSSIFDI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ], "site_lbl": "Thr1256" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P06786-1.1250.1250", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P06786-1.1252.1252", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06786-1.1254.1254", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06786-1.1258.1258", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P06786-1.1266.1266", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P06786-1.1267.1267", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P06786-1.1268.1268", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P06786-1.1269.1269", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P06786-1.1270.1270", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P06786-1.1272.1272", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06786-1.1258.1258", "start_pos": 1258, "end_pos": 1258, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "title": "SUMO is a pervasive regulator of meiosis.", "journal": "eLife", "date": "2021-01-27", "authors": "Bhagwat Nikhil R, Owens Shannon N, Ito Masaru, Boinapalli Jay V, Poa Philip, Ditzel Alexander, Kopparapu Srujan, Mahalawat Meghan, Davies Owen Richard, Collins Sean R, Johnson Jeffrey R, Krogan Nevan J, Hunter Neil", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ] }, { "title": "Casein kinase II phosphorylates the eukaryote-specific C-terminal domain of topoisomerase II in vivo.", "journal": "The EMBO journal", "date": "1992-05", "authors": "Cardenas M E, Dang Q, Glover C V, Gasser S M", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "1316274", "url": "https://glygen.org/publication/PubMed/1316274" } ] } ], "crossref": [ { "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312", "database": "PubMed", "categories": [ "Other" ] }, { "id": "1316274", "url": "https://glygen.org/publication/PubMed/1316274", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "KSKAPTKIKKEKTPSVSETK", "down_seq": "EEEENAPSSTSSSSIFDIKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine; by CK2", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "SGD", "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" }, { "database": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" }, { "database": "PubMed", "id": "1316274", "url": "https://glygen.org/publication/PubMed/1316274" } ], "site_lbl": "Thr1258" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P06786-1.1250.1250", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P06786-1.1252.1252", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P06786-1.1254.1254", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06786-1.1256.1256", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P06786-1.1266.1266", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P06786-1.1267.1267", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P06786-1.1268.1268", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P06786-1.1269.1269", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P06786-1.1270.1270", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P06786-1.1272.1272", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P06786-1.1266.1266", "start_pos": 1266, "end_pos": 1266, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "title": "SUMO is a pervasive regulator of meiosis.", "journal": "eLife", "date": "2021-01-27", "authors": "Bhagwat Nikhil R, Owens Shannon N, Ito Masaru, Boinapalli Jay V, Poa Philip, Ditzel Alexander, Kopparapu Srujan, Mahalawat Meghan, Davies Owen Richard, Collins Sean R, Johnson Jeffrey R, Krogan Nevan J, Hunter Neil", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ] }, { "title": "Casein kinase II phosphorylates the eukaryote-specific C-terminal domain of topoisomerase II in vivo.", "journal": "The EMBO journal", "date": "1992-05", "authors": "Cardenas M E, Dang Q, Glover C V, Gasser S M", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "1316274", "url": "https://glygen.org/publication/PubMed/1316274" } ] } ], "crossref": [ { "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312", "database": "PubMed", "categories": [ "Other" ] }, { "id": "1316274", "url": "https://glygen.org/publication/PubMed/1316274", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KKEKTPSVSETKTEEEENAP", "down_seq": "STSSSSIFDIKKEDKDEGEL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine; by CK2", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "SGD", "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" }, { "database": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" }, { "database": "PubMed", "id": "1316274", "url": "https://glygen.org/publication/PubMed/1316274" } ], "site_lbl": "Ser1266" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P06786-1.1250.1250", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P06786-1.1252.1252", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P06786-1.1254.1254", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P06786-1.1256.1256", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P06786-1.1258.1258", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P06786-1.1267.1267", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06786-1.1268.1268", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P06786-1.1269.1269", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P06786-1.1270.1270", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P06786-1.1272.1272", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P06786-1.1267.1267", "start_pos": 1267, "end_pos": 1267, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "title": "SUMO is a pervasive regulator of meiosis.", "journal": "eLife", "date": "2021-01-27", "authors": "Bhagwat Nikhil R, Owens Shannon N, Ito Masaru, Boinapalli Jay V, Poa Philip, Ditzel Alexander, Kopparapu Srujan, Mahalawat Meghan, Davies Owen Richard, Collins Sean R, Johnson Jeffrey R, Krogan Nevan J, Hunter Neil", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ] } ], "crossref": [ { "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KEKTPSVSETKTEEEENAPS", "down_seq": "TSSSSIFDIKKEDKDEGELS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" }, { "database": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ], "site_lbl": "Ser1267" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P06786-1.1250.1250", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P06786-1.1252.1252", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P06786-1.1254.1254", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P06786-1.1256.1256", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P06786-1.1258.1258", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P06786-1.1266.1266", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P06786-1.1268.1268", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06786-1.1269.1269", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P06786-1.1270.1270", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P06786-1.1272.1272", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P06786-1.1268.1268", "start_pos": 1268, "end_pos": 1268, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "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": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "title": "SUMO is a pervasive regulator of meiosis.", "journal": "eLife", "date": "2021-01-27", "authors": "Bhagwat Nikhil R, Owens Shannon N, Ito Masaru, Boinapalli Jay V, Poa Philip, Ditzel Alexander, Kopparapu Srujan, Mahalawat Meghan, Davies Owen Richard, Collins Sean R, Johnson Jeffrey R, Krogan Nevan J, Hunter Neil", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ] } ], "crossref": [ { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "EKTPSVSETKTEEEENAPSS", "down_seq": "SSSSIFDIKKEDKDEGELSK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" }, { "database": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ], "site_lbl": "Thr1268" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P06786-1.1250.1250", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P06786-1.1252.1252", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P06786-1.1254.1254", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P06786-1.1256.1256", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P06786-1.1258.1258", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06786-1.1266.1266", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P06786-1.1267.1267", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P06786-1.1269.1269", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06786-1.1270.1270", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P06786-1.1272.1272", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P06786-1.1269.1269", "start_pos": 1269, "end_pos": 1269, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "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": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "title": "SUMO is a pervasive regulator of meiosis.", "journal": "eLife", "date": "2021-01-27", "authors": "Bhagwat Nikhil R, Owens Shannon N, Ito Masaru, Boinapalli Jay V, Poa Philip, Ditzel Alexander, Kopparapu Srujan, Mahalawat Meghan, Davies Owen Richard, Collins Sean R, Johnson Jeffrey R, Krogan Nevan J, Hunter Neil", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ] }, { "title": "Casein kinase II phosphorylates the eukaryote-specific C-terminal domain of topoisomerase II in vivo.", "journal": "The EMBO journal", "date": "1992-05", "authors": "Cardenas M E, Dang Q, Glover C V, Gasser S M", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "1316274", "url": "https://glygen.org/publication/PubMed/1316274" } ] } ], "crossref": [ { "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312", "database": "PubMed", "categories": [ "Other" ] }, { "id": "1316274", "url": "https://glygen.org/publication/PubMed/1316274", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KTPSVSETKTEEEENAPSST", "down_seq": "SSSIFDIKKEDKDEGELSKI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine; by CK2", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" }, { "database": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" }, { "database": "PubMed", "id": "1316274", "url": "https://glygen.org/publication/PubMed/1316274" } ], "site_lbl": "Ser1269" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P06786-1.1250.1250", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P06786-1.1252.1252", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P06786-1.1254.1254", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P06786-1.1256.1256", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P06786-1.1258.1258", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P06786-1.1266.1266", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06786-1.1267.1267", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P06786-1.1268.1268", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P06786-1.1270.1270", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P06786-1.1272.1272", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P06786-1.1270.1270", "start_pos": 1270, "end_pos": 1270, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "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": "TPSVSETKTEEEENAPSSTS", "down_seq": "SSIFDIKKEDKDEGELSKIS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1270" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P06786-1.1250.1250", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P06786-1.1252.1252", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P06786-1.1254.1254", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P06786-1.1256.1256", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P06786-1.1258.1258", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P06786-1.1266.1266", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P06786-1.1267.1267", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06786-1.1268.1268", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P06786-1.1269.1269", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06786-1.1272.1272", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P06786-1.1290.1290", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06786-1.1272.1272", "start_pos": 1272, "end_pos": 1272, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Casein kinase II phosphorylates the eukaryote-specific C-terminal domain of topoisomerase II in vivo.", "journal": "The EMBO journal", "date": "1992-05", "authors": "Cardenas M E, Dang Q, Glover C V, Gasser S M", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "1316274", "url": "https://glygen.org/publication/PubMed/1316274" } ] } ], "crossref": [ { "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "1316274", "url": "https://glygen.org/publication/PubMed/1316274", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SVSETKTEEEENAPSSTSSS", "down_seq": "IFDIKKEDKDEGELSKISNK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine; by CK2", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "database": "PubMed", "id": "1316274", "url": "https://glygen.org/publication/PubMed/1316274" } ], "site_lbl": "Ser1272" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P06786-1.1252.1252", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P06786-1.1254.1254", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P06786-1.1256.1256", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P06786-1.1258.1258", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P06786-1.1266.1266", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P06786-1.1267.1267", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P06786-1.1268.1268", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P06786-1.1269.1269", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06786-1.1270.1270", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P06786-1.1290.1290", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06786-1.128.128", "start_pos": 128, "end_pos": 128, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IHNKENIYIPEMIFGHLLTS", "down_seq": "NYDDDEKKVTGGRNGYGAKL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032" } ], "site_lbl": "Ser128" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P06786-1.130.130", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06786-1.1290.1290", "start_pos": 1290, "end_pos": 1290, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] } ], "crossref": [ { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "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": "SSSIFDIKKEDKDEGELSKI", "down_seq": "NKFKKISTIFDKMGSTSATS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ], "site_lbl": "Ser1290" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P06786-1.1270.1270", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P06786-1.1272.1272", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P06786-1.1297.1297", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P06786-1.1305.1305", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P06786-1.1306.1306", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P06786-1.1307.1307", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P06786-1.1309.1309", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P06786-1.1310.1310", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06786-1.1297.1297", "start_pos": 1297, "end_pos": 1297, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "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": "KKEDKDEGELSKISNKFKKI", "down_seq": "TIFDKMGSTSATSKENTPEQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1297" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P06786-1.1290.1290", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P06786-1.1305.1305", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P06786-1.1306.1306", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P06786-1.1307.1307", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P06786-1.1309.1309", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P06786-1.1310.1310", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P06786-1.1314.1314", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06786-1.1305.1305", "start_pos": 1305, "end_pos": 1305, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "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": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032", "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": "ELSKISNKFKKISTIFDKMG", "down_seq": "TSATSKENTPEQDDVATKKN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "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": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1305" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P06786-1.1290.1290", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P06786-1.1297.1297", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P06786-1.1306.1306", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06786-1.1307.1307", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P06786-1.1309.1309", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P06786-1.1310.1310", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P06786-1.1314.1314", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P06786-1.1306.1306", "start_pos": 1306, "end_pos": 1306, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "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": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "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": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032", "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": "LSKISNKFKKISTIFDKMGS", "down_seq": "SATSKENTPEQDDVATKKNQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "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": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr1306" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P06786-1.1290.1290", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P06786-1.1297.1297", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P06786-1.1305.1305", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P06786-1.1307.1307", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P06786-1.1309.1309", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P06786-1.1310.1310", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P06786-1.1314.1314", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P06786-1.1307.1307", "start_pos": 1307, "end_pos": 1307, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "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": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032", "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": "SKISNKFKKISTIFDKMGST", "down_seq": "ATSKENTPEQDDVATKKNQT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "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": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1307" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P06786-1.1290.1290", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P06786-1.1297.1297", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06786-1.1305.1305", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P06786-1.1306.1306", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06786-1.1309.1309", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P06786-1.1310.1310", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P06786-1.1314.1314", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P06786-1.1309.1309", "start_pos": 1309, "end_pos": 1309, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032", "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": "ISNKFKKISTIFDKMGSTSA", "down_seq": "SKENTPEQDDVATKKNQTTA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "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": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr1309" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P06786-1.1290.1290", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P06786-1.1297.1297", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P06786-1.1305.1305", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P06786-1.1306.1306", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06786-1.1307.1307", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P06786-1.1310.1310", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P06786-1.1314.1314", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P06786-1.130.130", "start_pos": 130, "end_pos": 130, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "NKENIYIPEMIFGHLLTSSN", "down_seq": "DDDEKKVTGGRNGYGAKLCN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032" } ], "site_lbl": "Tyr130" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P06786-1.128.128", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06786-1.1310.1310", "start_pos": 1310, "end_pos": 1310, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032", "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": "SNKFKKISTIFDKMGSTSAT", "down_seq": "KENTPEQDDVATKKNQTTAK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "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": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032" }, { "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": "Ser1310" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P06786-1.1290.1290", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P06786-1.1297.1297", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P06786-1.1305.1305", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P06786-1.1306.1306", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P06786-1.1307.1307", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P06786-1.1309.1309", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P06786-1.1314.1314", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P06786-1.1314.1314", "start_pos": 1314, "end_pos": 1314, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "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": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "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": "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": "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": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032", "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": "T", "start_aa": "T", "up_seq": "KKISTIFDKMGSTSATSKEN", "down_seq": "PEQDDVATKKNQTTAKKTAV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "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": "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": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032" }, { "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": "Thr1314" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P06786-1.1297.1297", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P06786-1.1305.1305", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P06786-1.1306.1306", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P06786-1.1307.1307", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P06786-1.1309.1309", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P06786-1.1310.1310", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P06786-1.1353.1353", "start_pos": 1353, "end_pos": 1353, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Casein kinase II phosphorylates the eukaryote-specific C-terminal domain of topoisomerase II in vivo.", "journal": "The EMBO journal", "date": "1992-05", "authors": "Cardenas M E, Dang Q, Glover C V, Gasser S M", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "1316274", "url": "https://glygen.org/publication/PubMed/1316274" } ] } ], "crossref": [ { "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "1316274", "url": "https://glygen.org/publication/PubMed/1316274", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AVKPKLAKKPVRKQQKVVEL", "down_seq": "GESDLEILDSYTDREDSNKD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine; by CK2", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032" }, { "database": "PubMed", "id": "1316274", "url": "https://glygen.org/publication/PubMed/1316274" } ], "site_lbl": "Ser1353" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P06786-1.1356.1356", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P06786-1.1363.1363", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P06786-1.1365.1365", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P06786-1.1370.1370", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06786-1.1356.1356", "start_pos": 1356, "end_pos": 1356, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mutations in the C-terminal domain of topoisomerase II affect meiotic function and interaction with the casein kinase 2 beta subunit.", "journal": "Molecular and cellular biochemistry", "date": "1999-01", "authors": "Leroy D, Alghisi G C, Roberts E, Filhol-Cochet O, Gasser S M", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "10094396", "url": "https://glygen.org/publication/PubMed/10094396" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Casein kinase II phosphorylates the eukaryote-specific C-terminal domain of topoisomerase II in vivo.", "journal": "The EMBO journal", "date": "1992-05", "authors": "Cardenas M E, Dang Q, Glover C V, Gasser S M", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "1316274", "url": "https://glygen.org/publication/PubMed/1316274" } ] } ], "crossref": [ { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "10094396", "url": "https://glygen.org/publication/PubMed/10094396", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "1316274", "url": "https://glygen.org/publication/PubMed/1316274", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PKLAKKPVRKQQKVVELSGE", "down_seq": "DLEILDSYTDREDSNKDEDD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P15790-1", "kinase_gene_name": "CKA1", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "database": "PubMed", "id": "10094396", "url": "https://glygen.org/publication/PubMed/10094396" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ], "site_lbl": "Ser1356" }, { "kinase_uniprot_canonical_ac": "P19454-1", "kinase_gene_name": "CKA2", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "database": "PubMed", "id": "10094396", "url": "https://glygen.org/publication/PubMed/10094396" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ], "site_lbl": "Ser1356" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine; by CK2", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "SGD", "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "1316274", "url": "https://glygen.org/publication/PubMed/1316274" } ], "site_lbl": "Ser1356" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P06786-1.1353.1353", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P06786-1.1363.1363", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P06786-1.1365.1365", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P06786-1.1370.1370", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_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": "P06786-1.1363.1363", "start_pos": 1363, "end_pos": 1363, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mutations in the C-terminal domain of topoisomerase II affect meiotic function and interaction with the casein kinase 2 beta subunit.", "journal": "Molecular and cellular biochemistry", "date": "1999-01", "authors": "Leroy D, Alghisi G C, Roberts E, Filhol-Cochet O, Gasser S M", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "10094396", "url": "https://glygen.org/publication/PubMed/10094396" } ] } ], "crossref": [ { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "10094396", "url": "https://glygen.org/publication/PubMed/10094396", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VRKQQKVVELSGESDLEILD", "down_seq": "YTDREDSNKDEDDAIPQRSR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P15790-1", "kinase_gene_name": "CKA1", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "database": "PubMed", "id": "10094396", "url": "https://glygen.org/publication/PubMed/10094396" } ], "site_lbl": "Ser1363" }, { "kinase_uniprot_canonical_ac": "P19454-1", "kinase_gene_name": "CKA2", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "database": "PubMed", "id": "10094396", "url": "https://glygen.org/publication/PubMed/10094396" } ], "site_lbl": "Ser1363" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P06786-1.1353.1353", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P06786-1.1356.1356", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06786-1.1365.1365", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P06786-1.1370.1370", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06786-1.1365.1365", "start_pos": 1365, "end_pos": 1365, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mutations in the C-terminal domain of topoisomerase II affect meiotic function and interaction with the casein kinase 2 beta subunit.", "journal": "Molecular and cellular biochemistry", "date": "1999-01", "authors": "Leroy D, Alghisi G C, Roberts E, Filhol-Cochet O, Gasser S M", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "10094396", "url": "https://glygen.org/publication/PubMed/10094396" } ] } ], "crossref": [ { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "10094396", "url": "https://glygen.org/publication/PubMed/10094396", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "KQQKVVELSGESDLEILDSY", "down_seq": "DREDSNKDEDDAIPQRSRRQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P15790-1", "kinase_gene_name": "CKA1", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "database": "PubMed", "id": "10094396", "url": "https://glygen.org/publication/PubMed/10094396" } ], "site_lbl": "Thr1365" }, { "kinase_uniprot_canonical_ac": "P19454-1", "kinase_gene_name": "CKA2", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "database": "PubMed", "id": "10094396", "url": "https://glygen.org/publication/PubMed/10094396" } ], "site_lbl": "Thr1365" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P06786-1.1353.1353", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P06786-1.1356.1356", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06786-1.1363.1363", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P06786-1.1370.1370", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06786-1.1370.1370", "start_pos": 1370, "end_pos": 1370, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032", "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": "VELSGESDLEILDSYTDRED", "down_seq": "NKDEDDAIPQRSRRQRSSRA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1370" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P06786-1.1353.1353", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P06786-1.1356.1356", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P06786-1.1363.1363", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P06786-1.1365.1365", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P06786-1.1392.1392", "start_pos": 1392, "end_pos": 1392, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "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": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "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": "KDEDDAIPQRSRRQRSSRAA", "down_seq": "VPKKSYVETLELSDDSFIED", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1392" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "upstream", "id": "P06786-1.1408.1408", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06786-1.1408.1408", "start_pos": 1408, "end_pos": 1408, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Casein kinase II phosphorylates the eukaryote-specific C-terminal domain of topoisomerase II in vivo.", "journal": "The EMBO journal", "date": "1992-05", "authors": "Cardenas M E, Dang Q, Glover C V, Gasser S M", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "1316274", "url": "https://glygen.org/publication/PubMed/1316274" } ] } ], "crossref": [ { "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "1316274", "url": "https://glygen.org/publication/PubMed/1316274", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SRAASVPKKSYVETLELSDD", "down_seq": "FIEDDEEENQGSDVSFNEED", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine; by CK2", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "database": "PubMed", "id": "1316274", "url": "https://glygen.org/publication/PubMed/1316274" } ], "site_lbl": "Ser1408" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P06786-1.1392.1392", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P06786-1.1423.1423", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06786-1.1423.1423", "start_pos": 1423, "end_pos": 1423, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Casein kinase II phosphorylates the eukaryote-specific C-terminal domain of topoisomerase II in vivo.", "journal": "The EMBO journal", "date": "1992-05", "authors": "Cardenas M E, Dang Q, Glover C V, Gasser S M", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "1316274", "url": "https://glygen.org/publication/PubMed/1316274" } ] } ], "crossref": [ { "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "1316274", "url": "https://glygen.org/publication/PubMed/1316274", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ELSDDSFIEDDEEENQGSDV", "down_seq": "FNEED", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine; by CK2", "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "database": "PubMed", "id": "1316274", "url": "https://glygen.org/publication/PubMed/1316274" } ], "site_lbl": "Ser1423" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P06786-1.1408.1408", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06786-1.717.717", "start_pos": 717, "end_pos": 717, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DGFKPGQRKVLYGCFKKNLK", "down_seq": "ELKVAQLAPYVSECTAYHHG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser717" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P06786-1.697.697", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P06786-1.700.700", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P06786-1.704.704", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P06786-1.736.736", "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": "P06786-1.7.7", "start_pos": 7, "end_pos": 7, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MSTEPV", "down_seq": "ASDKYQKISQLEHILKRPDT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser7" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P06786-1.9.9", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06786-1.9.9", "start_pos": 9, "end_pos": 9, "uniprot_canonical_ac": "P06786-1", "length": 1428, "uniprot_id": "TOP2_YEAST", "protein_name": "DNA topoisomerase 2", "refseq_ac": "NP_014311", "refseq_name": "DNA topoisomerase 2", "gene_name": "TOP2", "gene_names_uniprotkb": "TOP2; N2244; TOR3", "gene_names_refseq": "TOP2; TOR3; TRF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06786", "url": "https://www.uniprot.org/uniprotkb/P06786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MSTEPVSA", "down_seq": "DKYQKISQLEHILKRPDTYI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005032", "url": "https://www.yeastgenome.org/locus/S000005032" }, { "database": "iPTMnet", "id": "P06786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06786" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser9" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "333", "end_pos": "336" }, { "start_pos": "690", "end_pos": "690" }, { "start_pos": "697", "end_pos": "697" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "704", "end_pos": "704" }, { "start_pos": "736", "end_pos": "736" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "828", "end_pos": "828" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1256", "end_pos": "1256" }, { "start_pos": "1258", "end_pos": "1258" }, { "start_pos": "1266", "end_pos": "1266" }, { "start_pos": "1267", "end_pos": "1267" }, { "start_pos": "1268", "end_pos": "1268" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1270", "end_pos": "1270" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "1290", "end_pos": "1290" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1305", "end_pos": "1305" }, { "start_pos": "1306", "end_pos": "1306" }, { "start_pos": "1307", "end_pos": "1307" }, { "start_pos": "1309", "end_pos": "1309" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "1310", "end_pos": "1310" }, { "start_pos": "1314", "end_pos": "1314" }, { "start_pos": "1353", "end_pos": "1353" }, { "start_pos": "1356", "end_pos": "1356" }, { "start_pos": "1363", "end_pos": "1363" }, { "start_pos": "1365", "end_pos": "1365" }, { "start_pos": "1370", "end_pos": "1370" }, { "start_pos": "1392", "end_pos": "1392" }, { "start_pos": "1408", "end_pos": "1408" }, { "start_pos": "1423", "end_pos": "1423" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P06786-1.7.7", "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": "P06787-1.105.105", "start_pos": 105, "end_pos": 105, "uniprot_canonical_ac": "P06787-1", "length": 147, "uniprot_id": "CALM_YEAST", "protein_name": "Calmodulin", "refseq_ac": "NP_009667", "refseq_name": "calmodulin", "gene_name": "CMD1", "gene_names_uniprotkb": "CMD1; YBR0904", "gene_names_refseq": "CMD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Can calmodulin function without binding calcium?", "journal": "Cell", "date": "1991-06-14", "authors": "Geiser J R, van Tuinen D, Brockerhoff S E, Neff M M, Davis T N", "evidence": [ { "database": "UniProtKB", "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" } ], "reference": [ { "type": "PubMed", "id": "2044154", "url": "https://glygen.org/publication/PubMed/2044154" } ] } ], "crossref": [ { "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "2044154", "url": "https://glygen.org/publication/PubMed/2044154", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "E", "start_aa": "E", "up_seq": "ELLEAFKVFDKNGDGLISAA", "down_seq": "LKHVLTSIGEKLTDAEVDDM", "mutagenesis": [ { "sequence_org": "E", "sequence_mut": "V", "comment": "Highly reduced affinity for Ca(2+).", "evidence": [ { "database": "UniProtKB", "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" }, { "database": "PubMed", "id": "2044154", "url": "https://glygen.org/publication/PubMed/2044154" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "105", "end_pos": "105" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "94", "end_pos": "94" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "82", "end_pos": "82" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P06787-1.94.94", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P06787-1.102.102", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P06787-1.111.111", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P06787-1.112.112", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P06787-1.118.118", "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": "P06787-1.21.21", "start_pos": 21, "end_pos": 21, "uniprot_canonical_ac": "P06787-1", "length": 147, "uniprot_id": "CALM_YEAST", "protein_name": "Calmodulin", "refseq_ac": "NP_009667", "refseq_name": "calmodulin", "gene_name": "CMD1", "gene_names_uniprotkb": "CMD1; YBR0904", "gene_names_refseq": "CMD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Can calmodulin function without binding calcium?", "journal": "Cell", "date": "1991-06-14", "authors": "Geiser J R, van Tuinen D, Brockerhoff S E, Neff M M, Davis T N", "evidence": [ { "database": "UniProtKB", "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" } ], "reference": [ { "type": "PubMed", "id": "2044154", "url": "https://glygen.org/publication/PubMed/2044154" } ] } ], "crossref": [ { "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "2044154", "url": "https://glygen.org/publication/PubMed/2044154", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "MSSNLTEEQIAEFKEAFALF", "down_seq": "KDNNGSISSSELATVMRSLG", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "Highly reduced affinity for Ca(2+).", "evidence": [ { "database": "UniProtKB", "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" }, { "database": "PubMed", "id": "2044154", "url": "https://glygen.org/publication/PubMed/2044154" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "105", "end_pos": "105" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "94", "end_pos": "94" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "82", "end_pos": "82" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P06787-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P06787-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P06787-1.29.29", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P06787-1.30.30", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P06787-1.32.32", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P06787-1.35.35", "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": "P06787-1.32.32", "start_pos": 32, "end_pos": 32, "uniprot_canonical_ac": "P06787-1", "length": 147, "uniprot_id": "CALM_YEAST", "protein_name": "Calmodulin", "refseq_ac": "NP_009667", "refseq_name": "calmodulin", "gene_name": "CMD1", "gene_names_uniprotkb": "CMD1; YBR0904", "gene_names_refseq": "CMD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Can calmodulin function without binding calcium?", "journal": "Cell", "date": "1991-06-14", "authors": "Geiser J R, van Tuinen D, Brockerhoff S E, Neff M M, Davis T N", "evidence": [ { "database": "UniProtKB", "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" } ], "reference": [ { "type": "PubMed", "id": "2044154", "url": "https://glygen.org/publication/PubMed/2044154" } ] } ], "crossref": [ { "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "2044154", "url": "https://glygen.org/publication/PubMed/2044154", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "E", "start_aa": "E", "up_seq": "EFKEAFALFDKDNNGSISSS", "down_seq": "LATVMRSLGLSPSEAEVNDL", "mutagenesis": [ { "sequence_org": "E", "sequence_mut": "V", "comment": "Highly reduced affinity for Ca(2+).", "evidence": [ { "database": "UniProtKB", "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" }, { "database": "PubMed", "id": "2044154", "url": "https://glygen.org/publication/PubMed/2044154" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "105", "end_pos": "105" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "94", "end_pos": "94" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "82", "end_pos": "82" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P06787-1.21.21", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P06787-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P06787-1.29.29", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06787-1.30.30", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P06787-1.35.35", "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": "P06787-1.57.57", "start_pos": 57, "end_pos": 57, "uniprot_canonical_ac": "P06787-1", "length": 147, "uniprot_id": "CALM_YEAST", "protein_name": "Calmodulin", "refseq_ac": "NP_009667", "refseq_name": "calmodulin", "gene_name": "CMD1", "gene_names_uniprotkb": "CMD1; YBR0904", "gene_names_refseq": "CMD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Can calmodulin function without binding calcium?", "journal": "Cell", "date": "1991-06-14", "authors": "Geiser J R, van Tuinen D, Brockerhoff S E, Neff M M, Davis T N", "evidence": [ { "database": "UniProtKB", "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" } ], "reference": [ { "type": "PubMed", "id": "2044154", "url": "https://glygen.org/publication/PubMed/2044154" } ] } ], "crossref": [ { "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "2044154", "url": "https://glygen.org/publication/PubMed/2044154", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "MRSLGLSPSEAEVNDLMNEI", "down_seq": "VDGNHQIEFSEFLALMSRQL", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "Highly reduced affinity for Ca(2+).", "evidence": [ { "database": "UniProtKB", "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" }, { "database": "PubMed", "id": "2044154", "url": "https://glygen.org/publication/PubMed/2044154" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "105", "end_pos": "105" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "94", "end_pos": "94" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "82", "end_pos": "82" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "upstream", "id": "P06787-1.68.68", "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": "P06787-1.68.68", "start_pos": 68, "end_pos": 68, "uniprot_canonical_ac": "P06787-1", "length": 147, "uniprot_id": "CALM_YEAST", "protein_name": "Calmodulin", "refseq_ac": "NP_009667", "refseq_name": "calmodulin", "gene_name": "CMD1", "gene_names_uniprotkb": "CMD1; YBR0904", "gene_names_refseq": "CMD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Can calmodulin function without binding calcium?", "journal": "Cell", "date": "1991-06-14", "authors": "Geiser J R, van Tuinen D, Brockerhoff S E, Neff M M, Davis T N", "evidence": [ { "database": "UniProtKB", "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" } ], "reference": [ { "type": "PubMed", "id": "2044154", "url": "https://glygen.org/publication/PubMed/2044154" } ] } ], "crossref": [ { "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "2044154", "url": "https://glygen.org/publication/PubMed/2044154", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "E", "start_aa": "E", "up_seq": "EVNDLMNEIDVDGNHQIEFS", "down_seq": "FLALMSRQLKSNDSEQELLE", "mutagenesis": [ { "sequence_org": "E", "sequence_mut": "V", "comment": "Highly reduced affinity for Ca(2+).", "evidence": [ { "database": "UniProtKB", "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" }, { "database": "PubMed", "id": "2044154", "url": "https://glygen.org/publication/PubMed/2044154" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "105", "end_pos": "105" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "94", "end_pos": "94" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "82", "end_pos": "82" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P06787-1.57.57", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P06787-1.79.79", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P06787-1.82.82", "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": "P06787-1.94.94", "start_pos": 94, "end_pos": 94, "uniprot_canonical_ac": "P06787-1", "length": 147, "uniprot_id": "CALM_YEAST", "protein_name": "Calmodulin", "refseq_ac": "NP_009667", "refseq_name": "calmodulin", "gene_name": "CMD1", "gene_names_uniprotkb": "CMD1; YBR0904", "gene_names_refseq": "CMD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Can calmodulin function without binding calcium?", "journal": "Cell", "date": "1991-06-14", "authors": "Geiser J R, van Tuinen D, Brockerhoff S E, Neff M M, Davis T N", "evidence": [ { "database": "UniProtKB", "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" } ], "reference": [ { "type": "PubMed", "id": "2044154", "url": "https://glygen.org/publication/PubMed/2044154" } ] } ], "crossref": [ { "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "2044154", "url": "https://glygen.org/publication/PubMed/2044154", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "SRQLKSNDSEQELLEAFKVF", "down_seq": "KNGDGLISAAELKHVLTSIG", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "Highly reduced affinity for Ca(2+).", "evidence": [ { "database": "UniProtKB", "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" }, { "database": "PubMed", "id": "2044154", "url": "https://glygen.org/publication/PubMed/2044154" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "105", "end_pos": "105" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "94", "end_pos": "94" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "82", "end_pos": "82" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P06787-1.79.79", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P06787-1.82.82", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P06787-1.102.102", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P06787-1.105.105", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P06787-1.111.111", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P06787-1.112.112", "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": "P06787-1.102.102", "start_pos": 102, "end_pos": 102, "uniprot_canonical_ac": "P06787-1", "length": 147, "uniprot_id": "CALM_YEAST", "protein_name": "Calmodulin", "refseq_ac": "NP_009667", "refseq_name": "calmodulin", "gene_name": "CMD1", "gene_names_uniprotkb": "CMD1; YBR0904", "gene_names_refseq": "CMD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" } ], "common_name": "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": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" }, { "database": "iPTMnet", "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" } ], "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": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" } ], "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": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000000313", "url": "https://www.yeastgenome.org/locus/S000000313", "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": "SEQELLEAFKVFDKNGDGLI", "down_seq": "AAELKHVLTSIGEKLTDAEV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" }, { "database": "SGD", "id": "S000000313", "url": "https://www.yeastgenome.org/locus/S000000313" }, { "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": "Ser102" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "105", "end_pos": "105" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "94", "end_pos": "94" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "82", "end_pos": "82" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P06787-1.82.82", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P06787-1.94.94", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P06787-1.105.105", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P06787-1.111.111", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P06787-1.112.112", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P06787-1.118.118", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06787-1.111.111", "start_pos": 111, "end_pos": 111, "uniprot_canonical_ac": "P06787-1", "length": 147, "uniprot_id": "CALM_YEAST", "protein_name": "Calmodulin", "refseq_ac": "NP_009667", "refseq_name": "calmodulin", "gene_name": "CMD1", "gene_names_uniprotkb": "CMD1; YBR0904", "gene_names_refseq": "CMD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000313", "url": "https://www.yeastgenome.org/locus/S000000313", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787", "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": "KVFDKNGDGLISAAELKHVL", "down_seq": "SIGEKLTDAEVDDMLREVSD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000313", "url": "https://www.yeastgenome.org/locus/S000000313" }, { "database": "iPTMnet", "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr111" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "105", "end_pos": "105" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "94", "end_pos": "94" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "82", "end_pos": "82" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P06787-1.94.94", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P06787-1.102.102", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P06787-1.105.105", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P06787-1.112.112", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P06787-1.118.118", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06787-1.112.112", "start_pos": 112, "end_pos": 112, "uniprot_canonical_ac": "P06787-1", "length": 147, "uniprot_id": "CALM_YEAST", "protein_name": "Calmodulin", "refseq_ac": "NP_009667", "refseq_name": "calmodulin", "gene_name": "CMD1", "gene_names_uniprotkb": "CMD1; YBR0904", "gene_names_refseq": "CMD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" } ], "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": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" } ], "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": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" } ], "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": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" }, { "database": "iPTMnet", "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" } ], "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": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000313", "url": "https://www.yeastgenome.org/locus/S000000313", "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": "VFDKNGDGLISAAELKHVLT", "down_seq": "IGEKLTDAEVDDMLREVSDG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" }, { "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": "S000000313", "url": "https://www.yeastgenome.org/locus/S000000313" }, { "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": "Ser112" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "105", "end_pos": "105" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "94", "end_pos": "94" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "82", "end_pos": "82" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P06787-1.94.94", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P06787-1.102.102", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P06787-1.105.105", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P06787-1.111.111", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P06787-1.118.118", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06787-1.118.118", "start_pos": 118, "end_pos": 118, "uniprot_canonical_ac": "P06787-1", "length": 147, "uniprot_id": "CALM_YEAST", "protein_name": "Calmodulin", "refseq_ac": "NP_009667", "refseq_name": "calmodulin", "gene_name": "CMD1", "gene_names_uniprotkb": "CMD1; YBR0904", "gene_names_refseq": "CMD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000313", "url": "https://www.yeastgenome.org/locus/S000000313", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787", "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": "DGLISAAELKHVLTSIGEKL", "down_seq": "DAEVDDMLREVSDGSGEINI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000313", "url": "https://www.yeastgenome.org/locus/S000000313" }, { "database": "iPTMnet", "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr118" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "105", "end_pos": "105" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "94", "end_pos": "94" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "82", "end_pos": "82" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P06787-1.102.102", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P06787-1.105.105", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P06787-1.111.111", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P06787-1.112.112", "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": "P06787-1.27.27", "start_pos": 27, "end_pos": 27, "uniprot_canonical_ac": "P06787-1", "length": 147, "uniprot_id": "CALM_YEAST", "protein_name": "Calmodulin", "refseq_ac": "NP_009667", "refseq_name": "calmodulin", "gene_name": "CMD1", "gene_names_uniprotkb": "CMD1; YBR0904", "gene_names_refseq": "CMD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" } ], "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": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" } ], "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": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000313", "url": "https://www.yeastgenome.org/locus/S000000313", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EEQIAEFKEAFALFDKDNNG", "down_seq": "ISSSELATVMRSLGLSPSEA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000313", "url": "https://www.yeastgenome.org/locus/S000000313" }, { "database": "iPTMnet", "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser27" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "105", "end_pos": "105" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "94", "end_pos": "94" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "82", "end_pos": "82" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P06787-1.21.21", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06787-1.29.29", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P06787-1.30.30", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P06787-1.32.32", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P06787-1.35.35", "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": "P06787-1.29.29", "start_pos": 29, "end_pos": 29, "uniprot_canonical_ac": "P06787-1", "length": 147, "uniprot_id": "CALM_YEAST", "protein_name": "Calmodulin", "refseq_ac": "NP_009667", "refseq_name": "calmodulin", "gene_name": "CMD1", "gene_names_uniprotkb": "CMD1; YBR0904", "gene_names_refseq": "CMD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" } ], "common_name": "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": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" }, { "database": "iPTMnet", "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "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": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" } ], "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": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000313", "url": "https://www.yeastgenome.org/locus/S000000313", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "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": "QIAEFKEAFALFDKDNNGSI", "down_seq": "SSELATVMRSLGLSPSEAEV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000313", "url": "https://www.yeastgenome.org/locus/S000000313" }, { "database": "iPTMnet", "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "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": "Ser29" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "105", "end_pos": "105" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "94", "end_pos": "94" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "82", "end_pos": "82" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P06787-1.21.21", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P06787-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P06787-1.30.30", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P06787-1.32.32", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P06787-1.35.35", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06787-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P06787-1", "length": 147, "uniprot_id": "CALM_YEAST", "protein_name": "Calmodulin", "refseq_ac": "NP_009667", "refseq_name": "calmodulin", "gene_name": "CMD1", "gene_names_uniprotkb": "CMD1; YBR0904", "gene_names_refseq": "CMD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" } ], "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": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] }, { "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": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] } ], "crossref": [ { "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000313", "url": "https://www.yeastgenome.org/locus/S000000313", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "M", "down_seq": "SNLTEEQIAEFKEAFALFDK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000000313", "url": "https://www.yeastgenome.org/locus/S000000313" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "105", "end_pos": "105" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "94", "end_pos": "94" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "82", "end_pos": "82" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "upstream", "id": "P06787-1.21.21", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06787-1.30.30", "start_pos": 30, "end_pos": 30, "uniprot_canonical_ac": "P06787-1", "length": 147, "uniprot_id": "CALM_YEAST", "protein_name": "Calmodulin", "refseq_ac": "NP_009667", "refseq_name": "calmodulin", "gene_name": "CMD1", "gene_names_uniprotkb": "CMD1; YBR0904", "gene_names_refseq": "CMD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000313", "url": "https://www.yeastgenome.org/locus/S000000313", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787", "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": "IAEFKEAFALFDKDNNGSIS", "down_seq": "SELATVMRSLGLSPSEAEVN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000313", "url": "https://www.yeastgenome.org/locus/S000000313" }, { "database": "iPTMnet", "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser30" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "105", "end_pos": "105" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "94", "end_pos": "94" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "82", "end_pos": "82" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P06787-1.21.21", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P06787-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P06787-1.29.29", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P06787-1.32.32", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P06787-1.35.35", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06787-1.35.35", "start_pos": 35, "end_pos": 35, "uniprot_canonical_ac": "P06787-1", "length": 147, "uniprot_id": "CALM_YEAST", "protein_name": "Calmodulin", "refseq_ac": "NP_009667", "refseq_name": "calmodulin", "gene_name": "CMD1", "gene_names_uniprotkb": "CMD1; YBR0904", "gene_names_refseq": "CMD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000313", "url": "https://www.yeastgenome.org/locus/S000000313", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787", "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": "EAFALFDKDNNGSISSSELA", "down_seq": "VMRSLGLSPSEAEVNDLMNE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000313", "url": "https://www.yeastgenome.org/locus/S000000313" }, { "database": "iPTMnet", "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr35" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "105", "end_pos": "105" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "94", "end_pos": "94" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "82", "end_pos": "82" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P06787-1.21.21", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P06787-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P06787-1.29.29", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P06787-1.30.30", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P06787-1.32.32", "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": "P06787-1.79.79", "start_pos": 79, "end_pos": 79, "uniprot_canonical_ac": "P06787-1", "length": 147, "uniprot_id": "CALM_YEAST", "protein_name": "Calmodulin", "refseq_ac": "NP_009667", "refseq_name": "calmodulin", "gene_name": "CMD1", "gene_names_uniprotkb": "CMD1; YBR0904", "gene_names_refseq": "CMD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000313", "url": "https://www.yeastgenome.org/locus/S000000313", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787", "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": "DGNHQIEFSEFLALMSRQLK", "down_seq": "NDSEQELLEAFKVFDKNGDG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000313", "url": "https://www.yeastgenome.org/locus/S000000313" }, { "database": "iPTMnet", "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser79" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "105", "end_pos": "105" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "94", "end_pos": "94" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "82", "end_pos": "82" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P06787-1.68.68", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P06787-1.82.82", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P06787-1.94.94", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06787-1.82.82", "start_pos": 82, "end_pos": 82, "uniprot_canonical_ac": "P06787-1", "length": 147, "uniprot_id": "CALM_YEAST", "protein_name": "Calmodulin", "refseq_ac": "NP_009667", "refseq_name": "calmodulin", "gene_name": "CMD1", "gene_names_uniprotkb": "CMD1; YBR0904", "gene_names_refseq": "CMD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" }, { "database": "iPTMnet", "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" } ], "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": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" }, { "database": "iPTMnet", "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" } ], "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": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" } ], "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": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" } ], "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": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" } ], "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": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" } ], "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": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000313", "url": "https://www.yeastgenome.org/locus/S000000313", "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": "HQIEFSEFLALMSRQLKSND", "down_seq": "EQELLEAFKVFDKNGDGLIS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P06787", "url": "https://www.uniprot.org/uniprotkb/P06787" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P06787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06787" }, { "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": "S000000313", "url": "https://www.yeastgenome.org/locus/S000000313" }, { "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": "Ser82" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "105", "end_pos": "105" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "94", "end_pos": "94" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "82", "end_pos": "82" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P06787-1.68.68", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P06787-1.79.79", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P06787-1.94.94", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P06787-1.102.102", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P06838-1.54.54", "start_pos": 54, "end_pos": 54, "uniprot_canonical_ac": "P06838-1", "length": 210, "uniprot_id": "RAD10_YEAST", "protein_name": "DNA repair protein RAD10", "refseq_ac": "NP_013614", "refseq_name": "DNA repair protein RAD10", "gene_name": "RAD10", "gene_names_uniprotkb": "RAD10", "gene_names_refseq": "RAD10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06838", "url": "https://www.uniprot.org/uniprotkb/P06838" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P06838", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06838" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004560", "url": "https://www.yeastgenome.org/locus/S000004560", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06838", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06838", "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": "LEIDASKLQQQEPQTSRRIN", "down_seq": "NQVINAFNQQKPEEWTDSKA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004560", "url": "https://www.yeastgenome.org/locus/S000004560" }, { "database": "iPTMnet", "id": "P06838", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06838" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser54" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "54", "end_pos": "54" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06839-1.111.111", "start_pos": 111, "end_pos": 111, "uniprot_canonical_ac": "P06839-1", "length": 778, "uniprot_id": "RAD3_YEAST", "protein_name": "General transcription and DNA repair factor IIH helicase subunit XPD/RAD3", "refseq_ac": "NP_011098", "refseq_name": "TFIIH/NER complex ATP-dependent 5'-3' DNA helicase subunit RAD3", "gene_name": "RAD3", "gene_names_uniprotkb": "RAD3; REM1", "gene_names_refseq": "RAD3; REM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06839", "url": "https://www.uniprot.org/uniprotkb/P06839" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The DNA repair helicases XPD and FancJ have essential iron-sulfur domains.", "journal": "Molecular cell", "date": "2006-09-15", "authors": "Rudolf Jana, Makrantoni Vasso, Ingledew W John, Stark Michael J R, White Malcolm F", "evidence": [ { "database": "UniProtKB", "id": "P06839", "url": "https://www.uniprot.org/uniprotkb/P06839" } ], "reference": [ { "type": "PubMed", "id": "16973432", "url": "https://glygen.org/publication/PubMed/16973432" } ] } ], "crossref": [ { "id": "P06839", "url": "https://www.uniprot.org/uniprotkb/P06839", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16973432", "url": "https://glygen.org/publication/PubMed/16973432", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "DYRTKELGYQEDFRGLGLTS", "down_seq": "KNLCLHPEVSKERKGTVVDE", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "H", "comment": "Intermediate level of UV-sensitivity.", "evidence": [ { "database": "UniProtKB", "id": "P06839", "url": "https://www.uniprot.org/uniprotkb/P06839" }, { "database": "PubMed", "id": "16973432", "url": "https://glygen.org/publication/PubMed/16973432" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "48", "end_pos": "48" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "279", "end_pos": "279" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P06839-1.115.115", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06839-1.115.115", "start_pos": 115, "end_pos": 115, "uniprot_canonical_ac": "P06839-1", "length": 778, "uniprot_id": "RAD3_YEAST", "protein_name": "General transcription and DNA repair factor IIH helicase subunit XPD/RAD3", "refseq_ac": "NP_011098", "refseq_name": "TFIIH/NER complex ATP-dependent 5'-3' DNA helicase subunit RAD3", "gene_name": "RAD3", "gene_names_uniprotkb": "RAD3; REM1", "gene_names_refseq": "RAD3; REM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06839", "url": "https://www.uniprot.org/uniprotkb/P06839" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The DNA repair helicases XPD and FancJ have essential iron-sulfur domains.", "journal": "Molecular cell", "date": "2006-09-15", "authors": "Rudolf Jana, Makrantoni Vasso, Ingledew W John, Stark Michael J R, White Malcolm F", "evidence": [ { "database": "UniProtKB", "id": "P06839", "url": "https://www.uniprot.org/uniprotkb/P06839" } ], "reference": [ { "type": "PubMed", "id": "16973432", "url": "https://glygen.org/publication/PubMed/16973432" } ] } ], "crossref": [ { "id": "P06839", "url": "https://www.uniprot.org/uniprotkb/P06839", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16973432", "url": "https://glygen.org/publication/PubMed/16973432", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "C", "start_aa": "C", "up_seq": "KELGYQEDFRGLGLTSRKNL", "down_seq": "LHPEVSKERKGTVVDEKCRR", "mutagenesis": [ { "sequence_org": "C", "sequence_mut": "S", "comment": "Extremely UV-sensitive.", "evidence": [ { "database": "UniProtKB", "id": "P06839", "url": "https://www.uniprot.org/uniprotkb/P06839" }, { "database": "PubMed", "id": "16973432", "url": "https://glygen.org/publication/PubMed/16973432" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "48", "end_pos": "48" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "279", "end_pos": "279" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P06839-1.111.111", "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": "P06839-1.236.236", "start_pos": 236, "end_pos": 236, "uniprot_canonical_ac": "P06839-1", "length": 778, "uniprot_id": "RAD3_YEAST", "protein_name": "General transcription and DNA repair factor IIH helicase subunit XPD/RAD3", "refseq_ac": "NP_011098", "refseq_name": "TFIIH/NER complex ATP-dependent 5'-3' DNA helicase subunit RAD3", "gene_name": "RAD3", "gene_names_uniprotkb": "RAD3; REM1", "gene_names_refseq": "RAD3; REM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06839", "url": "https://www.uniprot.org/uniprotkb/P06839" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "RAD3 gene of Saccharomyces cerevisiae: nucleotide sequence of wild-type and mutant alleles, transcript mapping, and aspects of gene regulation.", "journal": "Molecular and cellular biology", "date": "1985-01", "authors": "Naumovski L, Chu G, Berg P, Friedberg E C", "evidence": [ { "database": "UniProtKB", "id": "P06839", "url": "https://www.uniprot.org/uniprotkb/P06839" } ], "reference": [ { "type": "PubMed", "id": "3885009", "url": "https://glygen.org/publication/PubMed/3885009" } ] }, { "title": "Double-stranded DNA translocase activity of transcription factor TFIIH and the mechanism of RNA polymerase II open complex formation.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2015-03-31", "authors": "Fishburn James, Tomko Eric, Galburt Eric, Hahn Steven", "evidence": [ { "database": "UniProtKB", "id": "P06839", "url": "https://www.uniprot.org/uniprotkb/P06839" } ], "reference": [ { "type": "PubMed", "id": "25775526", "url": "https://glygen.org/publication/PubMed/25775526" } ] } ], "crossref": [ { "id": "P06839", "url": "https://www.uniprot.org/uniprotkb/P06839", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "3885009", "url": "https://glygen.org/publication/PubMed/3885009", "database": "PubMed", "categories": [ "Other" ] }, { "id": "25775526", "url": "https://glygen.org/publication/PubMed/25775526", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "E", "start_aa": "E", "up_seq": "PKIAERVSNEVSKDSIVIFD", "down_seq": "AHNIDNVCIESLSLDLTTDA", "mutagenesis": [ { "sequence_org": "E", "sequence_mut": "K", "comment": "In rad3-1; abnormal sensitivity to UV irradiation, defective excision of damaged DNA bases.", "evidence": [ { "database": "UniProtKB", "id": "P06839", "url": "https://www.uniprot.org/uniprotkb/P06839" }, { "database": "PubMed", "id": "3885009", "url": "https://glygen.org/publication/PubMed/3885009" } ] }, { "sequence_org": "E", "sequence_mut": "Q", "comment": "Loss of 5'-3' helicase activity of TFIIH, transcription still occurs, has no effect on DNA translocase activity.", "evidence": [ { "database": "UniProtKB", "id": "P06839", "url": "https://www.uniprot.org/uniprotkb/P06839" }, { "database": "PubMed", "id": "25775526", "url": "https://glygen.org/publication/PubMed/25775526" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "48", "end_pos": "48" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "279", "end_pos": "279" } ] } ], "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": "P06839-1.461.461", "start_pos": 461, "end_pos": 461, "uniprot_canonical_ac": "P06839-1", "length": 778, "uniprot_id": "RAD3_YEAST", "protein_name": "General transcription and DNA repair factor IIH helicase subunit XPD/RAD3", "refseq_ac": "NP_011098", "refseq_name": "TFIIH/NER complex ATP-dependent 5'-3' DNA helicase subunit RAD3", "gene_name": "RAD3", "gene_names_uniprotkb": "RAD3; REM1", "gene_names_refseq": "RAD3; REM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06839", "url": "https://www.uniprot.org/uniprotkb/P06839" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "RAD3 gene of Saccharomyces cerevisiae: nucleotide sequence of wild-type and mutant alleles, transcript mapping, and aspects of gene regulation.", "journal": "Molecular and cellular biology", "date": "1985-01", "authors": "Naumovski L, Chu G, Berg P, Friedberg E C", "evidence": [ { "database": "UniProtKB", "id": "P06839", "url": "https://www.uniprot.org/uniprotkb/P06839" } ], "reference": [ { "type": "PubMed", "id": "3885009", "url": "https://glygen.org/publication/PubMed/3885009" } ] } ], "crossref": [ { "id": "P06839", "url": "https://www.uniprot.org/uniprotkb/P06839", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "3885009", "url": "https://glygen.org/publication/PubMed/3885009", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "G", "start_aa": "G", "up_seq": "DASIAIKPVFERFSSVIITS", "down_seq": "TISPLDMYPRMLNFKTVLQK", "mutagenesis": [ { "sequence_org": "G", "sequence_mut": "R", "comment": "In rad3-2; abnormal sensitivity to UV irradiation, defective excision of damaged DNA bases.", "evidence": [ { "database": "UniProtKB", "id": "P06839", "url": "https://www.uniprot.org/uniprotkb/P06839" }, { "database": "PubMed", "id": "3885009", "url": "https://glygen.org/publication/PubMed/3885009" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "48", "end_pos": "48" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "279", "end_pos": "279" } ] } ], "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": "P06839-1.48.48", "start_pos": 48, "end_pos": 48, "uniprot_canonical_ac": "P06839-1", "length": 778, "uniprot_id": "RAD3_YEAST", "protein_name": "General transcription and DNA repair factor IIH helicase subunit XPD/RAD3", "refseq_ac": "NP_011098", "refseq_name": "TFIIH/NER complex ATP-dependent 5'-3' DNA helicase subunit RAD3", "gene_name": "RAD3", "gene_names_uniprotkb": "RAD3; REM1", "gene_names_refseq": "RAD3; REM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06839", "url": "https://www.uniprot.org/uniprotkb/P06839" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The DNA repair helicases XPD and FancJ have essential iron-sulfur domains.", "journal": "Molecular cell", "date": "2006-09-15", "authors": "Rudolf Jana, Makrantoni Vasso, Ingledew W John, Stark Michael J R, White Malcolm F", "evidence": [ { "database": "UniProtKB", "id": "P06839", "url": "https://www.uniprot.org/uniprotkb/P06839" } ], "reference": [ { "type": "PubMed", "id": "16973432", "url": "https://glygen.org/publication/PubMed/16973432" } ] }, { "title": "DNA.RNA helicase activity of RAD3 protein of Saccharomyces cerevisiae.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1991-11-01", "authors": "Bailly V, Sung P, Prakash L, Prakash S", "evidence": [ { "database": "UniProtKB", "id": "P06839", "url": "https://www.uniprot.org/uniprotkb/P06839" } ], "reference": [ { "type": "PubMed", "id": "1719538", "url": "https://glygen.org/publication/PubMed/1719538" } ] }, { "title": "Mutation of lysine-48 to arginine in the yeast RAD3 protein abolishes its ATPase and DNA helicase activities but not the ability to bind ATP.", "journal": "The EMBO journal", "date": "1988-10", "authors": "Sung P, Higgins D, Prakash L, Prakash S", "evidence": [ { "database": "UniProtKB", "id": "P06839", "url": "https://www.uniprot.org/uniprotkb/P06839" } ], "reference": [ { "type": "PubMed", "id": "2846277", "url": "https://glygen.org/publication/PubMed/2846277" } ] } ], "crossref": [ { "id": "P06839", "url": "https://www.uniprot.org/uniprotkb/P06839", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16973432", "url": "https://glygen.org/publication/PubMed/16973432", "database": "PubMed", "categories": [ "Other" ] }, { "id": "1719538", "url": "https://glygen.org/publication/PubMed/1719538", "database": "PubMed", "categories": [ "Other" ] }, { "id": "2846277", "url": "https://glygen.org/publication/PubMed/2846277", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "IKKTLDVGGNSILEMPSGTG", "down_seq": "TVSLLSLTIAYQMHYPEHRK", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "Loss of ATPase and DNA helicase activities but not ssDNA-binding or ATP-binding, impaired removal of pyrimidine dimers. Loss of RNA:DNA helicase. Extremely UV-sensitive.", "evidence": [ { "database": "UniProtKB", "id": "P06839", "url": "https://www.uniprot.org/uniprotkb/P06839" }, { "database": "PubMed", "id": "16973432", "url": "https://glygen.org/publication/PubMed/16973432" }, { "database": "PubMed", "id": "1719538", "url": "https://glygen.org/publication/PubMed/1719538" }, { "database": "PubMed", "id": "2846277", "url": "https://glygen.org/publication/PubMed/2846277" } ] }, { "sequence_org": "K", "sequence_mut": "R", "comment": "Loss of ATPase and DNA helicase activities but not ssDNA-binding or ATP-binding, impaired removal of pyrimidine dimers. Loss of RNA:DNA helicase. Extremely UV-sensitive.", "evidence": [ { "database": "UniProtKB", "id": "P06839", "url": "https://www.uniprot.org/uniprotkb/P06839" }, { "database": "PubMed", "id": "16973432", "url": "https://glygen.org/publication/PubMed/16973432" }, { "database": "PubMed", "id": "1719538", "url": "https://glygen.org/publication/PubMed/1719538" }, { "database": "PubMed", "id": "2846277", "url": "https://glygen.org/publication/PubMed/2846277" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "48", "end_pos": "48" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "279", "end_pos": "279" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06839-1.279.279", "start_pos": 279, "end_pos": 279, "uniprot_canonical_ac": "P06839-1", "length": 778, "uniprot_id": "RAD3_YEAST", "protein_name": "General transcription and DNA repair factor IIH helicase subunit XPD/RAD3", "refseq_ac": "NP_011098", "refseq_name": "TFIIH/NER complex ATP-dependent 5'-3' DNA helicase subunit RAD3", "gene_name": "RAD3", "gene_names_uniprotkb": "RAD3; REM1", "gene_names_refseq": "RAD3; REM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06839", "url": "https://www.uniprot.org/uniprotkb/P06839" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06839" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000973", "url": "https://www.yeastgenome.org/locus/S000000973", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06839", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RATRGANALDERISEVRKVD", "down_seq": "QKLQDEYEKLVQGLHSADIL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000973", "url": "https://www.yeastgenome.org/locus/S000000973" }, { "database": "iPTMnet", "id": "P06839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06839" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser279" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "48", "end_pos": "48" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "279", "end_pos": "279" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06843-1.289.290", "start_pos": 289, "end_pos": 290, "uniprot_canonical_ac": "P06843-1", "length": 333, "uniprot_id": "SPT2_YEAST", "protein_name": "Protein SPT2", "refseq_ac": "NP_011088", "refseq_name": "Spt2p", "gene_name": "SPT2", "gene_names_uniprotkb": "SPT2; SIN1; SPM2", "gene_names_refseq": "EXA1; SIN1; SPT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06843", "url": "https://www.uniprot.org/uniprotkb/P06843" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure-function studies of histone H3/H4 tetramer maintenance during transcription by chaperone Spt2.", "journal": "Genes & development", "date": "2015", "authors": "Chen S, Rufiange A, Huang H, Rajashankar KR, Nourani A, Patel DJ", "evidence": [ { "database": "UniProtKB", "id": "P06843", "url": "https://www.uniprot.org/uniprotkb/P06843" } ], "reference": [ { "type": "PubMed", "id": "26109053", "url": "https://glygen.org/publication/PubMed/26109053" } ] } ], "crossref": [ { "id": "P06843", "url": "https://www.uniprot.org/uniprotkb/P06843", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "26109053", "url": "https://glygen.org/publication/PubMed/26109053", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "ME", "start_aa": "M", "up_seq": "MFNRGKKRSEYDYDELEDDD", "down_seq": "ANEMEILEEEEMARKMARLE", "mutagenesis": [ { "sequence_org": "ME", "sequence_mut": "AA", "comment": "Strongly reduces histone binding.", "evidence": [ { "database": "UniProtKB", "id": "P06843", "url": "https://www.uniprot.org/uniprotkb/P06843" }, { "database": "PubMed", "id": "26109053", "url": "https://glygen.org/publication/PubMed/26109053" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "289", "end_pos": "290" }, { "start_pos": "299", "end_pos": "300" }, { "start_pos": "310", "end_pos": "311" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "126", "end_pos": "126" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "40", "end_pos": "40" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "upstream", "id": "P06843-1.299.300", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P06843-1.310.311", "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": "P06843-1.299.300", "start_pos": 299, "end_pos": 300, "uniprot_canonical_ac": "P06843-1", "length": 333, "uniprot_id": "SPT2_YEAST", "protein_name": "Protein SPT2", "refseq_ac": "NP_011088", "refseq_name": "Spt2p", "gene_name": "SPT2", "gene_names_uniprotkb": "SPT2; SIN1; SPM2", "gene_names_refseq": "EXA1; SIN1; SPT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06843", "url": "https://www.uniprot.org/uniprotkb/P06843" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure-function studies of histone H3/H4 tetramer maintenance during transcription by chaperone Spt2.", "journal": "Genes & development", "date": "2015", "authors": "Chen S, Rufiange A, Huang H, Rajashankar KR, Nourani A, Patel DJ", "evidence": [ { "database": "UniProtKB", "id": "P06843", "url": "https://www.uniprot.org/uniprotkb/P06843" } ], "reference": [ { "type": "PubMed", "id": "26109053", "url": "https://glygen.org/publication/PubMed/26109053" } ] } ], "crossref": [ { "id": "P06843", "url": "https://www.uniprot.org/uniprotkb/P06843", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "26109053", "url": "https://glygen.org/publication/PubMed/26109053", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "EE", "start_aa": "E", "up_seq": "YDYDELEDDDMEANEMEILE", "down_seq": "EMARKMARLEDKREEAWLKK", "mutagenesis": [ { "sequence_org": "EE", "sequence_mut": "AA", "comment": "Strongly reduces histone binding.", "evidence": [ { "database": "UniProtKB", "id": "P06843", "url": "https://www.uniprot.org/uniprotkb/P06843" }, { "database": "PubMed", "id": "26109053", "url": "https://glygen.org/publication/PubMed/26109053" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "289", "end_pos": "290" }, { "start_pos": "299", "end_pos": "300" }, { "start_pos": "310", "end_pos": "311" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "126", "end_pos": "126" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "40", "end_pos": "40" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P06843-1.289.290", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P06843-1.310.311", "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": "P06843-1.310.311", "start_pos": 310, "end_pos": 311, "uniprot_canonical_ac": "P06843-1", "length": 333, "uniprot_id": "SPT2_YEAST", "protein_name": "Protein SPT2", "refseq_ac": "NP_011088", "refseq_name": "Spt2p", "gene_name": "SPT2", "gene_names_uniprotkb": "SPT2; SIN1; SPM2", "gene_names_refseq": "EXA1; SIN1; SPT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06843", "url": "https://www.uniprot.org/uniprotkb/P06843" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure-function studies of histone H3/H4 tetramer maintenance during transcription by chaperone Spt2.", "journal": "Genes & development", "date": "2015", "authors": "Chen S, Rufiange A, Huang H, Rajashankar KR, Nourani A, Patel DJ", "evidence": [ { "database": "UniProtKB", "id": "P06843", "url": "https://www.uniprot.org/uniprotkb/P06843" } ], "reference": [ { "type": "PubMed", "id": "26109053", "url": "https://glygen.org/publication/PubMed/26109053" } ] } ], "crossref": [ { "id": "P06843", "url": "https://www.uniprot.org/uniprotkb/P06843", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "26109053", "url": "https://glygen.org/publication/PubMed/26109053", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "ED", "start_aa": "E", "up_seq": "EANEMEILEEEEMARKMARL", "down_seq": "KREEAWLKKHEEEKRRRKKG", "mutagenesis": [ { "sequence_org": "ED", "sequence_mut": "AA", "comment": "Strongly reduces histone binding.", "evidence": [ { "database": "UniProtKB", "id": "P06843", "url": "https://www.uniprot.org/uniprotkb/P06843" }, { "database": "PubMed", "id": "26109053", "url": "https://glygen.org/publication/PubMed/26109053" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "289", "end_pos": "290" }, { "start_pos": "299", "end_pos": "300" }, { "start_pos": "310", "end_pos": "311" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "126", "end_pos": "126" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "40", "end_pos": "40" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P06843-1.289.290", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P06843-1.299.300", "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": "P06843-1.126.126", "start_pos": 126, "end_pos": 126, "uniprot_canonical_ac": "P06843-1", "length": 333, "uniprot_id": "SPT2_YEAST", "protein_name": "Protein SPT2", "refseq_ac": "NP_011088", "refseq_name": "Spt2p", "gene_name": "SPT2", "gene_names_uniprotkb": "SPT2; SIN1; SPM2", "gene_names_refseq": "EXA1; SIN1; SPT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06843", "url": "https://www.uniprot.org/uniprotkb/P06843" } ], "common_name": "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": "P06843", "url": "https://www.uniprot.org/uniprotkb/P06843" }, { "database": "iPTMnet", "id": "P06843", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06843" } ], "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": "iPTMnet", "id": "P06843", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06843" } ], "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": "P06843", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06843" } ], "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": "P06843", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06843" } ], "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": "P06843", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06843" } ], "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": "P06843", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06843" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06843", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06843" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06843", "url": "https://www.uniprot.org/uniprotkb/P06843", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P06843", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06843", "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": "S000000963", "url": "https://www.yeastgenome.org/locus/S000000963", "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": "ASHAPLKPVVRKKPEPIKKM", "down_seq": "FEELMKQAENNEKQPPKVKS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P06843", "url": "https://www.uniprot.org/uniprotkb/P06843" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P06843", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06843" }, { "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": "S000000963", "url": "https://www.yeastgenome.org/locus/S000000963" }, { "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": "Ser126" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "289", "end_pos": "290" }, { "start_pos": "299", "end_pos": "300" }, { "start_pos": "310", "end_pos": "311" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "126", "end_pos": "126" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "40", "end_pos": "40" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P06843-1.173.173", "start_pos": 173, "end_pos": 173, "uniprot_canonical_ac": "P06843-1", "length": 333, "uniprot_id": "SPT2_YEAST", "protein_name": "Protein SPT2", "refseq_ac": "NP_011088", "refseq_name": "Spt2p", "gene_name": "SPT2", "gene_names_uniprotkb": "SPT2; SIN1; SPM2", "gene_names_refseq": "EXA1; SIN1; SPT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06843", "url": "https://www.uniprot.org/uniprotkb/P06843" } ], "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": "P06843", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06843" } ], "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": "P06843", "url": "https://www.uniprot.org/uniprotkb/P06843" }, { "database": "iPTMnet", "id": "P06843", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06843" } ], "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": "iPTMnet", "id": "P06843", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06843" } ], "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": "P06843", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06843" } ], "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": "P06843", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06843" } ], "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": "P06843", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06843" } ], "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": "P06843", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06843" } ], "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": "P06843", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06843" } ], "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": "P06843", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06843" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06843", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06843" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06843", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06843", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000963", "url": "https://www.yeastgenome.org/locus/S000000963", "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": "ERPHFNKPGFKSSKRPQKKA", "down_seq": "PGATLRGVSSGGNSIKSSDS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06843", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06843" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000963", "url": "https://www.yeastgenome.org/locus/S000000963" }, { "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": "Ser173" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "289", "end_pos": "290" }, { "start_pos": "299", "end_pos": "300" }, { "start_pos": "310", "end_pos": "311" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "126", "end_pos": "126" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "40", "end_pos": "40" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "upstream", "id": "P06843-1.193.193", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 10 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06843-1.193.193", "start_pos": 193, "end_pos": 193, "uniprot_canonical_ac": "P06843-1", "length": 333, "uniprot_id": "SPT2_YEAST", "protein_name": "Protein SPT2", "refseq_ac": "NP_011088", "refseq_name": "Spt2p", "gene_name": "SPT2", "gene_names_uniprotkb": "SPT2; SIN1; SPM2", "gene_names_refseq": "EXA1; SIN1; SPT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06843", "url": "https://www.uniprot.org/uniprotkb/P06843" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P06843", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06843" } ], "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": "P06843", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06843" } ], "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": "P06843", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06843" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000963", "url": "https://www.yeastgenome.org/locus/S000000963", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06843", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06843", "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": "SPGATLRGVSSGGNSIKSSD", "down_seq": "PKPVKLNLPTNGFAQPNRRL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000963", "url": "https://www.yeastgenome.org/locus/S000000963" }, { "database": "iPTMnet", "id": "P06843", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06843" }, { "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": "Ser193" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "289", "end_pos": "290" }, { "start_pos": "299", "end_pos": "300" }, { "start_pos": "310", "end_pos": "311" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "126", "end_pos": "126" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "40", "end_pos": "40" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P06843-1.173.173", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06843-1.40.40", "start_pos": 40, "end_pos": 40, "uniprot_canonical_ac": "P06843-1", "length": 333, "uniprot_id": "SPT2_YEAST", "protein_name": "Protein SPT2", "refseq_ac": "NP_011088", "refseq_name": "Spt2p", "gene_name": "SPT2", "gene_names_uniprotkb": "SPT2; SIN1; SPM2", "gene_names_refseq": "EXA1; SIN1; SPT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06843", "url": "https://www.uniprot.org/uniprotkb/P06843" } ], "common_name": "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": "P06843", "url": "https://www.uniprot.org/uniprotkb/P06843" }, { "database": "iPTMnet", "id": "P06843", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06843" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "S000000963", "url": "https://www.yeastgenome.org/locus/S000000963", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06843", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06843", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "QVQDPLPKKNDEEYSLLPKN", "down_seq": "IRDEDPAVKRLKELRRQELL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000963", "url": "https://www.yeastgenome.org/locus/S000000963" }, { "database": "iPTMnet", "id": "P06843", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06843" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ], "site_lbl": "Tyr40" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "289", "end_pos": "290" }, { "start_pos": "299", "end_pos": "300" }, { "start_pos": "310", "end_pos": "311" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "126", "end_pos": "126" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "40", "end_pos": "40" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06844-1.219.219", "start_pos": 219, "end_pos": 219, "uniprot_canonical_ac": "P06844-1", "length": 337, "uniprot_id": "SPT3_YEAST", "protein_name": "SAGA complex subunit SPT3", "refseq_ac": "NP_010680", "refseq_name": "transcriptional regulator SPT3", "gene_name": "SPT3", "gene_names_uniprotkb": "SPT3; D9509.12", "gene_names_refseq": "SPT3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06844", "url": "https://www.uniprot.org/uniprotkb/P06844" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06844", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06844" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002800", "url": "https://www.yeastgenome.org/locus/S000002800", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06844", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06844", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "CRQASFTFRKNKRFKDWSGI", "down_seq": "QLTEGKPHDDVIDILGFLTF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002800", "url": "https://www.yeastgenome.org/locus/S000002800" }, { "database": "iPTMnet", "id": "P06844", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06844" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser219" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "219", "end_pos": "219" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "280", "end_pos": "280" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06844-1.266.266", "start_pos": 266, "end_pos": 266, "uniprot_canonical_ac": "P06844-1", "length": 337, "uniprot_id": "SPT3_YEAST", "protein_name": "SAGA complex subunit SPT3", "refseq_ac": "NP_010680", "refseq_name": "transcriptional regulator SPT3", "gene_name": "SPT3", "gene_names_uniprotkb": "SPT3; D9509.12", "gene_names_refseq": "SPT3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06844", "url": "https://www.uniprot.org/uniprotkb/P06844" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06844", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06844" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002800", "url": "https://www.yeastgenome.org/locus/S000002800", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06844", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06844", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TETALKIKQREQVLQTQKDK", "down_seq": "QQSSQDNTNFEFASSTLHRK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002800", "url": "https://www.yeastgenome.org/locus/S000002800" }, { "database": "iPTMnet", "id": "P06844", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06844" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser266" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "219", "end_pos": "219" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "280", "end_pos": "280" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P06844-1.269.269", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P06844-1.270.270", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P06844-1.274.274", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P06844-1.280.280", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06844-1.269.269", "start_pos": 269, "end_pos": 269, "uniprot_canonical_ac": "P06844-1", "length": 337, "uniprot_id": "SPT3_YEAST", "protein_name": "SAGA complex subunit SPT3", "refseq_ac": "NP_010680", "refseq_name": "transcriptional regulator SPT3", "gene_name": "SPT3", "gene_names_uniprotkb": "SPT3; D9509.12", "gene_names_refseq": "SPT3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06844", "url": "https://www.uniprot.org/uniprotkb/P06844" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P06844", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06844" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002800", "url": "https://www.yeastgenome.org/locus/S000002800", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P06844", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06844", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ALKIKQREQVLQTQKDKSQQ", "down_seq": "SQDNTNFEFASSTLHRKKRL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002800", "url": "https://www.yeastgenome.org/locus/S000002800" }, { "database": "iPTMnet", "id": "P06844", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06844" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser269" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "219", "end_pos": "219" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "280", "end_pos": "280" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P06844-1.266.266", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P06844-1.270.270", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P06844-1.274.274", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P06844-1.280.280", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06844-1.270.270", "start_pos": 270, "end_pos": 270, "uniprot_canonical_ac": "P06844-1", "length": 337, "uniprot_id": "SPT3_YEAST", "protein_name": "SAGA complex subunit SPT3", "refseq_ac": "NP_010680", "refseq_name": "transcriptional regulator SPT3", "gene_name": "SPT3", "gene_names_uniprotkb": "SPT3; D9509.12", "gene_names_refseq": "SPT3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06844", "url": "https://www.uniprot.org/uniprotkb/P06844" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P06844", "url": "https://www.uniprot.org/uniprotkb/P06844" }, { "database": "iPTMnet", "id": "P06844", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06844" } ], "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": "P06844", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06844" } ], "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": "P06844", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06844" } ], "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": "P06844", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06844" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06844", "url": "https://www.uniprot.org/uniprotkb/P06844", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P06844", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06844", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002800", "url": "https://www.yeastgenome.org/locus/S000002800", "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": "LKIKQREQVLQTQKDKSQQS", "down_seq": "QDNTNFEFASSTLHRKKRLF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P06844", "url": "https://www.uniprot.org/uniprotkb/P06844" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P06844", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06844" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000002800", "url": "https://www.yeastgenome.org/locus/S000002800" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser270" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "219", "end_pos": "219" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "280", "end_pos": "280" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P06844-1.266.266", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P06844-1.269.269", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P06844-1.274.274", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P06844-1.280.280", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06844-1.274.274", "start_pos": 274, "end_pos": 274, "uniprot_canonical_ac": "P06844-1", "length": 337, "uniprot_id": "SPT3_YEAST", "protein_name": "SAGA complex subunit SPT3", "refseq_ac": "NP_010680", "refseq_name": "transcriptional regulator SPT3", "gene_name": "SPT3", "gene_names_uniprotkb": "SPT3; D9509.12", "gene_names_refseq": "SPT3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06844", "url": "https://www.uniprot.org/uniprotkb/P06844" } ], "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": "P06844", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06844" } ], "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": "P06844", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06844" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P06844", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06844", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002800", "url": "https://www.yeastgenome.org/locus/S000002800", "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": "QREQVLQTQKDKSQQSSQDN", "down_seq": "NFEFASSTLHRKKRLFDGPE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06844", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06844" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000002800", "url": "https://www.yeastgenome.org/locus/S000002800" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr274" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "219", "end_pos": "219" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "280", "end_pos": "280" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P06844-1.266.266", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P06844-1.269.269", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P06844-1.270.270", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P06844-1.280.280", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P06844-1.280.280", "start_pos": 280, "end_pos": 280, "uniprot_canonical_ac": "P06844-1", "length": 337, "uniprot_id": "SPT3_YEAST", "protein_name": "SAGA complex subunit SPT3", "refseq_ac": "NP_010680", "refseq_name": "transcriptional regulator SPT3", "gene_name": "SPT3", "gene_names_uniprotkb": "SPT3; D9509.12", "gene_names_refseq": "SPT3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P06844", "url": "https://www.uniprot.org/uniprotkb/P06844" } ], "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": "P06844", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06844" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P06844", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06844", "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": "QTQKDKSQQSSQDNTNFEFA", "down_seq": "STLHRKKRLFDGPENVINPL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P06844", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P06844" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Ser280" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "219", "end_pos": "219" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "280", "end_pos": "280" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P06844-1.266.266", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P06844-1.269.269", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P06844-1.270.270", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P06844-1.274.274", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07143-1.166.166", "start_pos": 166, "end_pos": 166, "uniprot_canonical_ac": "P07143-1", "length": 309, "uniprot_id": "CY1_YEAST", "protein_name": "Cytochrome c1, heme protein, mitochondrial", "refseq_ac": "NP_014708", "refseq_name": "ubiquinol--cytochrome-c reductase catalytic subunit CYT1", "gene_name": "CYT1", "gene_names_uniprotkb": "CYT1; CTC1; YOR29-16", "gene_names_refseq": "CTC1; CYT1; YOR29-16", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07143", "url": "https://www.uniprot.org/uniprotkb/P07143" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Role of Arg-166 in yeast cytochrome C1.", "journal": "The Journal of biological chemistry", "date": "2001-05-25", "authors": "Ahmad Z, Sherman F", "evidence": [ { "database": "UniProtKB", "id": "P07143", "url": "https://www.uniprot.org/uniprotkb/P07143" } ], "reference": [ { "type": "PubMed", "id": "11279090", "url": "https://glygen.org/publication/PubMed/11279090" } ] } ], "crossref": [ { "id": "P07143", "url": "https://www.uniprot.org/uniprotkb/P07143", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11279090", "url": "https://glygen.org/publication/PubMed/11279090", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "KRPGKLSDYIPGPYPNEQAA", "down_seq": "AANQGALPPDLSLIVKARHG", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "G", "comment": "Abolishes catalytic activity.", "evidence": [ { "database": "UniProtKB", "id": "P07143", "url": "https://www.uniprot.org/uniprotkb/P07143" }, { "database": "PubMed", "id": "11279090", "url": "https://glygen.org/publication/PubMed/11279090" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "166", "end_pos": "166" }, { "start_pos": "272", "end_pos": "272" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "296", "end_pos": "296" } ] } ], "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": "P07143-1.272.272", "start_pos": 272, "end_pos": 272, "uniprot_canonical_ac": "P07143-1", "length": 309, "uniprot_id": "CY1_YEAST", "protein_name": "Cytochrome c1, heme protein, mitochondrial", "refseq_ac": "NP_014708", "refseq_name": "ubiquinol--cytochrome-c reductase catalytic subunit CYT1", "gene_name": "CYT1", "gene_names_uniprotkb": "CYT1; CTC1; YOR29-16", "gene_names_refseq": "CTC1; CYT1; YOR29-16", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07143", "url": "https://www.uniprot.org/uniprotkb/P07143" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P07143", "url": "https://www.uniprot.org/uniprotkb/P07143", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "TTFLNWCAEPEHDERKRLGL", "down_seq": "TVIILSSLYLLSIWVKKFKW", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "Loss of RIP1 from the bc1 complex.", "evidence": [ { "database": "UniProtKB", "id": "P07143", "url": "https://www.uniprot.org/uniprotkb/P07143" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "166", "end_pos": "166" }, { "start_pos": "272", "end_pos": "272" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "296", "end_pos": "296" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "upstream", "id": "P07143-1.288.288", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P07143-1.289.289", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "P07143-1.288.288", "start_pos": 288, "end_pos": 288, "uniprot_canonical_ac": "P07143-1", "length": 309, "uniprot_id": "CY1_YEAST", "protein_name": "Cytochrome c1, heme protein, mitochondrial", "refseq_ac": "NP_014708", "refseq_name": "ubiquinol--cytochrome-c reductase catalytic subunit CYT1", "gene_name": "CYT1", "gene_names_uniprotkb": "CYT1; CTC1; YOR29-16", "gene_names_refseq": "CTC1; CYT1; YOR29-16", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07143", "url": "https://www.uniprot.org/uniprotkb/P07143" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Crystal structure of the yeast cytochrome bc1 complex with its bound substrate cytochrome c.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2002", "authors": "Lange C, Hunte C", "evidence": [ { "database": "UniProtKB", "id": "P07143", "url": "https://www.uniprot.org/uniprotkb/P07143" } ], "reference": [ { "type": "PubMed", "id": "11880631", "url": "https://glygen.org/publication/PubMed/11880631" } ] } ], "crossref": [ { "id": "P07143", "url": "https://www.uniprot.org/uniprotkb/P07143", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11880631", "url": "https://glygen.org/publication/PubMed/11880631", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "RLGLKTVIILSSLYLLSIWV", "down_seq": "KFKWAGIKTRKFVFNPPKPR", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "L", "comment": "Loss of CYT1 and COB from the bc1 complex; when associated with L-289 and L-296.", "evidence": [ { "database": "UniProtKB", "id": "P07143", "url": "https://www.uniprot.org/uniprotkb/P07143" }, { "database": "PubMed", "id": "11880631", "url": "https://glygen.org/publication/PubMed/11880631" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "166", "end_pos": "166" }, { "start_pos": "272", "end_pos": "272" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "296", "end_pos": "296" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P07143-1.272.272", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07143-1.289.289", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07143-1.296.296", "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": "P07143-1.289.289", "start_pos": 289, "end_pos": 289, "uniprot_canonical_ac": "P07143-1", "length": 309, "uniprot_id": "CY1_YEAST", "protein_name": "Cytochrome c1, heme protein, mitochondrial", "refseq_ac": "NP_014708", "refseq_name": "ubiquinol--cytochrome-c reductase catalytic subunit CYT1", "gene_name": "CYT1", "gene_names_uniprotkb": "CYT1; CTC1; YOR29-16", "gene_names_refseq": "CTC1; CYT1; YOR29-16", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07143", "url": "https://www.uniprot.org/uniprotkb/P07143" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Crystal structure of the yeast cytochrome bc1 complex with its bound substrate cytochrome c.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2002", "authors": "Lange C, Hunte C", "evidence": [ { "database": "UniProtKB", "id": "P07143", "url": "https://www.uniprot.org/uniprotkb/P07143" } ], "reference": [ { "type": "PubMed", "id": "11880631", "url": "https://glygen.org/publication/PubMed/11880631" } ] } ], "crossref": [ { "id": "P07143", "url": "https://www.uniprot.org/uniprotkb/P07143", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11880631", "url": "https://glygen.org/publication/PubMed/11880631", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "LGLKTVIILSSLYLLSIWVK", "down_seq": "FKWAGIKTRKFVFNPPKPRK", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "L", "comment": "Loss of CYT1 and COB from the bc1 complex; when associated with L-288 and L-296.", "evidence": [ { "database": "UniProtKB", "id": "P07143", "url": "https://www.uniprot.org/uniprotkb/P07143" }, { "database": "PubMed", "id": "11880631", "url": "https://glygen.org/publication/PubMed/11880631" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "166", "end_pos": "166" }, { "start_pos": "272", "end_pos": "272" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "296", "end_pos": "296" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P07143-1.272.272", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07143-1.288.288", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07143-1.296.296", "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": "P07143-1.296.296", "start_pos": 296, "end_pos": 296, "uniprot_canonical_ac": "P07143-1", "length": 309, "uniprot_id": "CY1_YEAST", "protein_name": "Cytochrome c1, heme protein, mitochondrial", "refseq_ac": "NP_014708", "refseq_name": "ubiquinol--cytochrome-c reductase catalytic subunit CYT1", "gene_name": "CYT1", "gene_names_uniprotkb": "CYT1; CTC1; YOR29-16", "gene_names_refseq": "CTC1; CYT1; YOR29-16", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07143", "url": "https://www.uniprot.org/uniprotkb/P07143" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Crystal structure of the yeast cytochrome bc1 complex with its bound substrate cytochrome c.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2002", "authors": "Lange C, Hunte C", "evidence": [ { "database": "UniProtKB", "id": "P07143", "url": "https://www.uniprot.org/uniprotkb/P07143" } ], "reference": [ { "type": "PubMed", "id": "11880631", "url": "https://glygen.org/publication/PubMed/11880631" } ] } ], "crossref": [ { "id": "P07143", "url": "https://www.uniprot.org/uniprotkb/P07143", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11880631", "url": "https://glygen.org/publication/PubMed/11880631", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "ILSSLYLLSIWVKKFKWAGI", "down_seq": "TRKFVFNPPKPRK", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "L", "comment": "Loss of CYT1 and COB from the bc1 complex; when associated with L-288 and L-289.", "evidence": [ { "database": "UniProtKB", "id": "P07143", "url": "https://www.uniprot.org/uniprotkb/P07143" }, { "database": "PubMed", "id": "11880631", "url": "https://glygen.org/publication/PubMed/11880631" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "166", "end_pos": "166" }, { "start_pos": "272", "end_pos": "272" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "296", "end_pos": "296" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P07143-1.288.288", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P07143-1.289.289", "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": "P07149-1.1051.1051", "start_pos": 1051, "end_pos": 1051, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "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": "KDSLWQSEHLEAVVDQDVQR", "down_seq": "CILHGPVAAQFTKVIDEPIK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr1051" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.1072.1072", "start_pos": 1072, "end_pos": 1072, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "CILHGPVAAQFTKVIDEPIK", "down_seq": "IMDGIHDGHIKKLLHQYYGD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1072" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.1102.1102", "start_pos": 1102, "end_pos": 1102, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "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": "IKKLLHQYYGDDESKIPAVE", "down_seq": "FGGESPVDVQSQVDSSSVSE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Tyr1102" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P07149-1.1107.1107", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07149-1.1113.1113", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07149-1.1117.1117", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P07149-1.1119.1119", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P07149-1.1121.1121", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.1107.1107", "start_pos": 1107, "end_pos": 1107, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HQYYGDDESKIPAVEYFGGE", "down_seq": "PVDVQSQVDSSSVSEDSAVF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1107" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P07149-1.1102.1102", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07149-1.1113.1113", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07149-1.1117.1117", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P07149-1.1119.1119", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07149-1.1121.1121", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P07149-1.1124.1124", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.1113.1113", "start_pos": 1113, "end_pos": 1113, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DESKIPAVEYFGGESPVDVQ", "down_seq": "QVDSSSVSEDSAVFKATSST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1113" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P07149-1.1102.1102", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07149-1.1107.1107", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07149-1.1117.1117", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07149-1.1119.1119", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07149-1.1121.1121", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07149-1.1124.1124", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.1117.1117", "start_pos": 1117, "end_pos": 1117, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "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": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "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": "IPAVEYFGGESPVDVQSQVD", "down_seq": "SSVSEDSAVFKATSSTDEES", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ], "site_lbl": "Ser1117" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P07149-1.1102.1102", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P07149-1.1107.1107", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07149-1.1113.1113", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07149-1.1119.1119", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07149-1.1121.1121", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07149-1.1124.1124", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.1119.1119", "start_pos": 1119, "end_pos": 1119, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "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": "AVEYFGGESPVDVQSQVDSS", "down_seq": "VSEDSAVFKATSSTDEESWF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser1119" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P07149-1.1102.1102", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P07149-1.1107.1107", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07149-1.1113.1113", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07149-1.1117.1117", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07149-1.1121.1121", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07149-1.1124.1124", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.1121.1121", "start_pos": 1121, "end_pos": 1121, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "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": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "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": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "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": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149", "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": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "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": "EYFGGESPVDVQSQVDSSSV", "down_seq": "EDSAVFKATSSTDEESWFKA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" }, { "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": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1121" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P07149-1.1102.1102", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P07149-1.1107.1107", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07149-1.1113.1113", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07149-1.1117.1117", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07149-1.1119.1119", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07149-1.1124.1124", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07149-1.1124.1124", "start_pos": 1124, "end_pos": 1124, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "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": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GGESPVDVQSQVDSSSVSED", "down_seq": "AVFKATSSTDEESWFKALAG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" } ], "site_lbl": "Ser1124" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P07149-1.1107.1107", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P07149-1.1113.1113", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P07149-1.1117.1117", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07149-1.1119.1119", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07149-1.1121.1121", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.1145.1145", "start_pos": 1145, "end_pos": 1145, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "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": "AVFKATSSTDEESWFKALAG", "down_seq": "EINWRHASFLCSFITQDKMF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1145" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.114.114", "start_pos": 114, "end_pos": 114, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "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": "CYLEGNDIHALAAKLLQEND", "down_seq": "TLVKTKELIKNYITARIMAK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr114" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P07149-1.115.115", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.115.115", "start_pos": 115, "end_pos": 115, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "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": "YLEGNDIHALAAKLLQENDT", "down_seq": "LVKTKELIKNYITARIMAKR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr115" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P07149-1.114.114", "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": "P07149-1.1167.1167", "start_pos": 1167, "end_pos": 1167, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "INWRHASFLCSFITQDKMFV", "down_seq": "NPIRKVFKPSQGMVVEISNG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1167" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "upstream", "id": "P07149-1.1177.1177", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.1177.1177", "start_pos": 1177, "end_pos": 1177, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "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": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] } ], "crossref": [ { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SFITQDKMFVSNPIRKVFKP", "down_seq": "QGMVVEISNGNTSSKTVVTL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ], "site_lbl": "Ser1177" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P07149-1.1167.1167", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P07149-1.1189.1189", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07149-1.1190.1190", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07149-1.1191.1191", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.1189.1189", "start_pos": 1189, "end_pos": 1189, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "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": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] } ], "crossref": [ { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "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": "PIRKVFKPSQGMVVEISNGN", "down_seq": "SSKTVVTLSEPVQGELKPTV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ], "site_lbl": "Thr1189" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P07149-1.1177.1177", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07149-1.1190.1190", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07149-1.1191.1191", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.1190.1190", "start_pos": 1190, "end_pos": 1190, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "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": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] } ], "crossref": [ { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IRKVFKPSQGMVVEISNGNT", "down_seq": "SKTVVTLSEPVQGELKPTVI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ], "site_lbl": "Ser1190" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P07149-1.1177.1177", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07149-1.1189.1189", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07149-1.1191.1191", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.1191.1191", "start_pos": 1191, "end_pos": 1191, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "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": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] } ], "crossref": [ { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RKVFKPSQGMVVEISNGNTS", "down_seq": "KTVVTLSEPVQGELKPTVIL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ], "site_lbl": "Ser1191" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P07149-1.1177.1177", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07149-1.1189.1189", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07149-1.1190.1190", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.1395.1395", "start_pos": 1395, "end_pos": 1395, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "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": "TAVIESVVNQPTGKIVDVVG", "down_seq": "LSRNGKPVMEVTSSFFYRGN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr1395" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P07149-1.1397.1397", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.1397.1397", "start_pos": 1397, "end_pos": 1397, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VIESVVNQPTGKIVDVVGTL", "down_seq": "RNGKPVMEVTSSFFYRGNYT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1397" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07149-1.1395.1395", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.141.141", "start_pos": 141, "end_pos": 141, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "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": "ELIKNYITARIMAKRPFDKK", "down_seq": "NSALFRAVGEGNAQLVAIFG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser141" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P07149-1.143.143", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.1438.1438", "start_pos": 1438, "end_pos": 1438, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DFENTFQKTVEPVYQMHIKT", "down_seq": "KDIAVLRSKEWFQLDDEDFD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1438" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.143.143", "start_pos": 143, "end_pos": 143, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "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": "IKNYITARIMAKRPFDKKSN", "down_seq": "ALFRAVGEGNAQLVAIFGGQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser143" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07149-1.141.141", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.1481.1481", "start_pos": 1481, "end_pos": 1481, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NKTLTFETETEVTFKNANIF", "down_seq": "SVKCFGPIKVELPTKETVEI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1481" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P07149-1.1482.1482", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.1482.1482", "start_pos": 1482, "end_pos": 1482, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "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": "KTLTFETETEVTFKNANIFS", "down_seq": "VKCFGPIKVELPTKETVEIG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1482" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P07149-1.1481.1481", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.1525.1525", "start_pos": 1525, "end_pos": 1525, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "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": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "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": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "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": "DYEAGASHGNPVVDFLKRNG", "down_seq": "TLEQKVNLENPIPIAVLDSY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "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": "Ser1525" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.1557.1557", "start_pos": 1557, "end_pos": 1557, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "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": "IPIAVLDSYTPSTNEPYARV", "down_seq": "GDLNPIHVSRHFASYANLPG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser1557" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "upstream", "id": "P07149-1.1566.1566", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07149-1.1571.1571", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.1566.1566", "start_pos": 1566, "end_pos": 1566, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "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": "TPSTNEPYARVSGDLNPIHV", "down_seq": "RHFASYANLPGTITHGMFSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser1566" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P07149-1.1557.1557", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07149-1.1571.1571", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.1571.1571", "start_pos": 1571, "end_pos": 1571, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EPYARVSGDLNPIHVSRHFA", "down_seq": "YANLPGTITHGMFSSASVRA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1571" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P07149-1.1557.1557", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07149-1.1566.1566", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.1600.1600", "start_pos": 1600, "end_pos": 1600, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "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": "THGMFSSASVRALIENWAAD", "down_seq": "VSSRVRGYTCQFVDMVLPNT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser1600" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P07149-1.1602.1602", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07149-1.1608.1608", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07149-1.1609.1609", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.1602.1602", "start_pos": 1602, "end_pos": 1602, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "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": "GMFSSASVRALIENWAADSV", "down_seq": "SRVRGYTCQFVDMVLPNTAL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1602" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07149-1.1600.1600", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07149-1.1608.1608", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07149-1.1609.1609", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.1608.1608", "start_pos": 1608, "end_pos": 1608, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "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": "SVRALIENWAADSVSSRVRG", "down_seq": "TCQFVDMVLPNTALKTSIQH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr1608" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P07149-1.1600.1600", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07149-1.1602.1602", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07149-1.1609.1609", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.1609.1609", "start_pos": 1609, "end_pos": 1609, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "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": "VRALIENWAADSVSSRVRGY", "down_seq": "CQFVDMVLPNTALKTSIQHV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr1609" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P07149-1.1600.1600", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P07149-1.1602.1602", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07149-1.1608.1608", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.1865.1865", "start_pos": 1865, "end_pos": 1865, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DELGRSNYGMIAINPGRVAA", "down_seq": "FSQEALQYVVERVGKRTGWL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1865" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.1930.1930", "start_pos": 1930, "end_pos": 1930, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "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": "VTNVLNFIKLQKIDIIELQK", "down_seq": "LSLEEVEGHLFEIIDEASKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser1930" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.274.274", "start_pos": 274, "end_pos": 274, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KLLGFTPGELRSYLKGATGH", "down_seq": "QGLVTAVAIAETDSWESFFV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser274" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.400.400", "start_pos": 400, "end_pos": 400, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "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": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "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": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "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": "SGPPQSLYGLNLTLRKAKAP", "down_seq": "GLDQSRIPFSERKLKFSNRF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "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": "Ser400" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P07149-1.405.405", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07149-1.405.405", "start_pos": 405, "end_pos": 405, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "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": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "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": "SLYGLNLTLRKAKAPSGLDQ", "down_seq": "RIPFSERKLKFSNRFLPVAS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser405" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P07149-1.400.400", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07149-1.425.425", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.425.425", "start_pos": 425, "end_pos": 425, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SRIPFSERKLKFSNRFLPVA", "down_seq": "PFHSHLLVPASDLINKDLVK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser425" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07149-1.405.405", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.449.449", "start_pos": 449, "end_pos": 449, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SHLLVPASDLINKDLVKNNV", "down_seq": "FNAKDIQIPVYDTFDGSDLR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser449" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.472.472", "start_pos": 472, "end_pos": 472, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "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": "AKDIQIPVYDTFDGSDLRVL", "down_seq": "GSISERIVDCIIRLPVKWET", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser472" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P07149-1.474.474", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.474.474", "start_pos": 474, "end_pos": 474, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "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": "DIQIPVYDTFDGSDLRVLSG", "down_seq": "ISERIVDCIIRLPVKWETTT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser474" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07149-1.472.472", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.56.56", "start_pos": 56, "end_pos": 56, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "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": "QFNKILPEPTEGFAADDEPT", "down_seq": "PAELVGKFLGYVSSLVEPSK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr56" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.598.598", "start_pos": 598, "end_pos": 598, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "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": "FVETKFSKLIGRPPLLVPGM", "down_seq": "PCTVSPDFVAATTNAGYTIE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr598" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.733.733", "start_pos": 733, "end_pos": 733, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "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": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "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": "ISQVINIAKAHPNFPIALQW", "down_seq": "GGRGGGHHSFEDAHTPMLQM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr733" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "upstream", "id": "P07149-1.748.748", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.748.748", "start_pos": 748, "end_pos": 748, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "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": "IALQWTGGRGGGHHSFEDAH", "down_seq": "PMLQMYSKIRRHPNIMLIFG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr748" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P07149-1.733.733", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.813.813", "start_pos": 813, "end_pos": 813, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "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": "PMPFDGFLFGSRVMIAKEVK", "down_seq": "SPDAKKCIAACTGVPDDKWE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr813" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P07149-1.814.814", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.814.814", "start_pos": 814, "end_pos": 814, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MPFDGFLFGSRVMIAKEVKT", "down_seq": "PDAKKCIAACTGVPDDKWEQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser814" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P07149-1.813.813", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.848.848", "start_pos": 848, "end_pos": 848, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "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": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "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": "PDDKWEQTYKKPTGGIVTVR", "down_seq": "EMGEPIHKIATRGVMLWKEF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "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": "Ser848" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.969.969", "start_pos": 969, "end_pos": 969, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DFLRRVEERFTKSKTLSLIQ", "down_seq": "YSLLDKPDEAIEKVFNAYPA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser969" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P07149-1.970.970", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07149-1.971.971", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.970.970", "start_pos": 970, "end_pos": 970, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "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": "FLRRVEERFTKSKTLSLIQS", "down_seq": "SLLDKPDEAIEKVFNAYPAA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr970" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P07149-1.969.969", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07149-1.971.971", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07149-1.971.971", "start_pos": 971, "end_pos": 971, "uniprot_canonical_ac": "P07149-1", "length": 2051, "uniprot_id": "FAS1_YEAST", "protein_name": "Fatty acid synthase subunit beta", "refseq_ac": "NP_012739", "refseq_name": "tetrafunctional fatty acid synthase subunit FAS1", "gene_name": "FAS1", "gene_names_uniprotkb": "FAS1", "gene_names_refseq": "FAS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07149", "url": "https://www.uniprot.org/uniprotkb/P07149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LRRVEERFTKSKTLSLIQSY", "down_seq": "LLDKPDEAIEKVFNAYPAAR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001665", "url": "https://www.yeastgenome.org/locus/S000001665" }, { "database": "iPTMnet", "id": "P07149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07149" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser971" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1102", "end_pos": "1102" }, { "start_pos": "1107", "end_pos": "1107" }, { "start_pos": "1113", "end_pos": "1113" }, { "start_pos": "1117", "end_pos": "1117" }, { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1121", "end_pos": "1121" }, { "start_pos": "1124", "end_pos": "1124" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "1167", "end_pos": "1167" }, { "start_pos": "1177", "end_pos": "1177" }, { "start_pos": "1189", "end_pos": "1189" }, { "start_pos": "1190", "end_pos": "1190" }, { "start_pos": "1191", "end_pos": "1191" }, { "start_pos": "1395", "end_pos": "1395" }, { "start_pos": "1397", "end_pos": "1397" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "1438", "end_pos": "1438" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "1481", "end_pos": "1481" }, { "start_pos": "1482", "end_pos": "1482" }, { "start_pos": "1525", "end_pos": "1525" }, { "start_pos": "1557", "end_pos": "1557" }, { "start_pos": "1566", "end_pos": "1566" }, { "start_pos": "1571", "end_pos": "1571" }, { "start_pos": "1600", "end_pos": "1600" }, { "start_pos": "1602", "end_pos": "1602" }, { "start_pos": "1608", "end_pos": "1608" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1865", "end_pos": "1865" }, { "start_pos": "1930", "end_pos": "1930" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "733", "end_pos": "733" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07149-1.969.969", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07149-1.970.970", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07170-1.112.112", "start_pos": 112, "end_pos": 112, "uniprot_canonical_ac": "P07170-1", "length": 222, "uniprot_id": "KAD2_YEAST", "protein_name": "Adenylate kinase", "refseq_ac": "NP_010512", "refseq_name": "adenylate kinase ADK1", "gene_name": "ADK1", "gene_names_uniprotkb": "ADK1; AKY1; AKY2; AKY; YD9934.11", "gene_names_refseq": "ADK1; AKY1; AKY2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07170", "url": "https://www.uniprot.org/uniprotkb/P07170" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07170", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07170" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002634", "url": "https://www.yeastgenome.org/locus/S000002634", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07170", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07170", "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": "GFPRTIPQAEKLDQMLKEQG", "down_seq": "PLEKAIELKVDDELLVARIT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002634", "url": "https://www.yeastgenome.org/locus/S000002634" }, { "database": "iPTMnet", "id": "P07170", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07170" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr112" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "3", "end_pos": "3" }, { "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": "P07170-1.140.140", "start_pos": 140, "end_pos": 140, "uniprot_canonical_ac": "P07170-1", "length": 222, "uniprot_id": "KAD2_YEAST", "protein_name": "Adenylate kinase", "refseq_ac": "NP_010512", "refseq_name": "adenylate kinase ADK1", "gene_name": "ADK1", "gene_names_uniprotkb": "ADK1; AKY1; AKY2; AKY; YD9934.11", "gene_names_refseq": "ADK1; AKY1; AKY2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07170", "url": "https://www.uniprot.org/uniprotkb/P07170" } ], "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": "P07170", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07170" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "iPTMnet", "id": "P07170", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07170" } ], "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": "P07170", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07170" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07170", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07170" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07170", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07170", "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": "S000002634", "url": "https://www.yeastgenome.org/locus/S000002634", "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": "LKVDDELLVARITGRLIHPA", "down_seq": "GRSYHKIFNPPKEDMKDDVT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07170", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07170" }, { "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": "S000002634", "url": "https://www.yeastgenome.org/locus/S000002634" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser140" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "3", "end_pos": "3" }, { "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07170-1.21.21", "start_pos": 21, "end_pos": 21, "uniprot_canonical_ac": "P07170-1", "length": 222, "uniprot_id": "KAD2_YEAST", "protein_name": "Adenylate kinase", "refseq_ac": "NP_010512", "refseq_name": "adenylate kinase ADK1", "gene_name": "ADK1", "gene_names_uniprotkb": "ADK1; AKY1; AKY2; AKY; YD9934.11", "gene_names_refseq": "ADK1; AKY1; AKY2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07170", "url": "https://www.uniprot.org/uniprotkb/P07170" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07170", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07170" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002634", "url": "https://www.yeastgenome.org/locus/S000002634", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07170", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07170", "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": "MSSSESIRMVLIGPPGAGKG", "down_seq": "QAPNLQERFHAAHLATGDML", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002634", "url": "https://www.yeastgenome.org/locus/S000002634" }, { "database": "iPTMnet", "id": "P07170", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07170" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr21" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P07170-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P07170-1.3.3", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P07170-1.6.6", "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": "P07170-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P07170-1", "length": 222, "uniprot_id": "KAD2_YEAST", "protein_name": "Adenylate kinase", "refseq_ac": "NP_010512", "refseq_name": "adenylate kinase ADK1", "gene_name": "ADK1", "gene_names_uniprotkb": "ADK1; AKY1; AKY2; AKY; YD9934.11", "gene_names_refseq": "ADK1; AKY1; AKY2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07170", "url": "https://www.uniprot.org/uniprotkb/P07170" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07170", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07170" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002634", "url": "https://www.yeastgenome.org/locus/S000002634", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07170", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07170", "database": "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": "SSESIRMVLIGPPGAGKGTQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002634", "url": "https://www.yeastgenome.org/locus/S000002634" }, { "database": "iPTMnet", "id": "P07170", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07170" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P07170-1.3.3", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07170-1.6.6", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P07170-1.21.21", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07170-1.3.3", "start_pos": 3, "end_pos": 3, "uniprot_canonical_ac": "P07170-1", "length": 222, "uniprot_id": "KAD2_YEAST", "protein_name": "Adenylate kinase", "refseq_ac": "NP_010512", "refseq_name": "adenylate kinase ADK1", "gene_name": "ADK1", "gene_names_uniprotkb": "ADK1; AKY1; AKY2; AKY; YD9934.11", "gene_names_refseq": "ADK1; AKY1; AKY2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07170", "url": "https://www.uniprot.org/uniprotkb/P07170" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07170", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07170" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002634", "url": "https://www.yeastgenome.org/locus/S000002634", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07170", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07170", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MS", "down_seq": "SESIRMVLIGPPGAGKGTQA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002634", "url": "https://www.yeastgenome.org/locus/S000002634" }, { "database": "iPTMnet", "id": "P07170", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07170" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser3" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P07170-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07170-1.6.6", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P07170-1.21.21", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07170-1.6.6", "start_pos": 6, "end_pos": 6, "uniprot_canonical_ac": "P07170-1", "length": 222, "uniprot_id": "KAD2_YEAST", "protein_name": "Adenylate kinase", "refseq_ac": "NP_010512", "refseq_name": "adenylate kinase ADK1", "gene_name": "ADK1", "gene_names_uniprotkb": "ADK1; AKY1; AKY2; AKY; YD9934.11", "gene_names_refseq": "ADK1; AKY1; AKY2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07170", "url": "https://www.uniprot.org/uniprotkb/P07170" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07170", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07170" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002634", "url": "https://www.yeastgenome.org/locus/S000002634", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07170", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07170", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MSSSE", "down_seq": "IRMVLIGPPGAGKGTQAPNL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002634", "url": "https://www.yeastgenome.org/locus/S000002634" }, { "database": "iPTMnet", "id": "P07170", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07170" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser6" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P07170-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07170-1.3.3", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07170-1.21.21", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07213-1.174.174", "start_pos": 174, "end_pos": 174, "uniprot_canonical_ac": "P07213-1", "length": 617, "uniprot_id": "TOM70_YEAST", "protein_name": "Mitochondrial import receptor subunit TOM70", "refseq_ac": "NP_014278", "refseq_name": "protein channel TOM70", "gene_name": "TOM70", "gene_names_uniprotkb": "TOM70; MAS70; N1905; OMP1", "gene_names_refseq": "MAS70; MOM72; OMP1; TOM70", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07213", "url": "https://www.uniprot.org/uniprotkb/P07213" } ], "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": "P07213", "url": "https://www.uniprot.org/uniprotkb/P07213" }, { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "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": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "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": "P07213", "url": "https://www.uniprot.org/uniprotkb/P07213" }, { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "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": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "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": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "Regulation of mitochondrial protein import by cytosolic kinases.", "journal": "Cell", "date": "2011-01-21", "authors": "Schmidt Oliver, Harbauer Angelika B, Rao Sanjana, Eyrich Beate, Zahedi Ren\u00e9 P, Stojanovski Diana, Sch\u00f6nfisch Birgit, Guiard Bernard, Sickmann Albert, Pfanner Nikolaus, Meisinger Chris", "evidence": [ { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "reference": [ { "type": "PubMed", "id": "21215441", "url": "https://glygen.org/publication/PubMed/21215441" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "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": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "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": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07213", "url": "https://www.uniprot.org/uniprotkb/P07213", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213", "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": "S000005065", "url": "https://www.yeastgenome.org/locus/S000005065", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "21215441", "url": "https://glygen.org/publication/PubMed/21215441", "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": "MSTKALELKPDYSKVLLRRA", "down_seq": "ANEGLGKFADAMFDLSVLSL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07213", "url": "https://www.uniprot.org/uniprotkb/P07213" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" }, { "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": "S000005065", "url": "https://www.yeastgenome.org/locus/S000005065" }, { "database": "PubMed", "id": "21215441", "url": "https://glygen.org/publication/PubMed/21215441" }, { "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": "Ser174" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "174", "end_pos": "174" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "77", "end_pos": "77" }, { "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": 10 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07213-1.228.228", "start_pos": 228, "end_pos": 228, "uniprot_canonical_ac": "P07213-1", "length": 617, "uniprot_id": "TOM70_YEAST", "protein_name": "Mitochondrial import receptor subunit TOM70", "refseq_ac": "NP_014278", "refseq_name": "protein channel TOM70", "gene_name": "TOM70", "gene_names_uniprotkb": "TOM70; MAS70; N1905; OMP1", "gene_names_refseq": "MAS70; MOM72; OMP1; TOM70", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07213", "url": "https://www.uniprot.org/uniprotkb/P07213" } ], "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": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "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": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "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": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005065", "url": "https://www.yeastgenome.org/locus/S000005065", "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": "ERNLNKQAMSKLKEKFGDID", "down_seq": "ATATPTELSTQPAKERKDKQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000005065", "url": "https://www.yeastgenome.org/locus/S000005065" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr228" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "174", "end_pos": "174" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P07213-1.230.230", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07213-1.232.232", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07213-1.234.234", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07213-1.237.237", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07213-1.238.238", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07213-1.230.230", "start_pos": 230, "end_pos": 230, "uniprot_canonical_ac": "P07213-1", "length": 617, "uniprot_id": "TOM70_YEAST", "protein_name": "Mitochondrial import receptor subunit TOM70", "refseq_ac": "NP_014278", "refseq_name": "protein channel TOM70", "gene_name": "TOM70", "gene_names_uniprotkb": "TOM70; MAS70; N1905; OMP1", "gene_names_refseq": "MAS70; MOM72; OMP1; TOM70", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07213", "url": "https://www.uniprot.org/uniprotkb/P07213" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "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": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005065", "url": "https://www.yeastgenome.org/locus/S000005065", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213", "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": "NLNKQAMSKLKEKFGDIDTA", "down_seq": "ATPTELSTQPAKERKDKQEN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005065", "url": "https://www.yeastgenome.org/locus/S000005065" }, { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr230" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "174", "end_pos": "174" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07213-1.228.228", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07213-1.232.232", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07213-1.234.234", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07213-1.237.237", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07213-1.238.238", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07213-1.232.232", "start_pos": 232, "end_pos": 232, "uniprot_canonical_ac": "P07213-1", "length": 617, "uniprot_id": "TOM70_YEAST", "protein_name": "Mitochondrial import receptor subunit TOM70", "refseq_ac": "NP_014278", "refseq_name": "protein channel TOM70", "gene_name": "TOM70", "gene_names_uniprotkb": "TOM70; MAS70; N1905; OMP1", "gene_names_refseq": "MAS70; MOM72; OMP1; TOM70", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07213", "url": "https://www.uniprot.org/uniprotkb/P07213" } ], "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": "P07213", "url": "https://www.uniprot.org/uniprotkb/P07213" }, { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "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": "P07213", "url": "https://www.uniprot.org/uniprotkb/P07213" }, { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "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": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "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": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213", "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": "S000005065", "url": "https://www.yeastgenome.org/locus/S000005065", "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": "NKQAMSKLKEKFGDIDTATA", "down_seq": "PTELSTQPAKERKDKQENLP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" }, { "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": "S000005065", "url": "https://www.yeastgenome.org/locus/S000005065" }, { "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": "Thr232" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "174", "end_pos": "174" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P07213-1.228.228", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07213-1.230.230", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07213-1.234.234", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07213-1.237.237", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07213-1.238.238", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07213-1.234.234", "start_pos": 234, "end_pos": 234, "uniprot_canonical_ac": "P07213-1", "length": 617, "uniprot_id": "TOM70_YEAST", "protein_name": "Mitochondrial import receptor subunit TOM70", "refseq_ac": "NP_014278", "refseq_name": "protein channel TOM70", "gene_name": "TOM70", "gene_names_uniprotkb": "TOM70; MAS70; N1905; OMP1", "gene_names_refseq": "MAS70; MOM72; OMP1; TOM70", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07213", "url": "https://www.uniprot.org/uniprotkb/P07213" } ], "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": "P07213", "url": "https://www.uniprot.org/uniprotkb/P07213" }, { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "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": "P07213", "url": "https://www.uniprot.org/uniprotkb/P07213" }, { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "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": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213", "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": "S000005065", "url": "https://www.yeastgenome.org/locus/S000005065", "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": "QAMSKLKEKFGDIDTATATP", "down_seq": "ELSTQPAKERKDKQENLPSV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" }, { "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": "S000005065", "url": "https://www.yeastgenome.org/locus/S000005065" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr234" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "174", "end_pos": "174" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P07213-1.228.228", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07213-1.230.230", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07213-1.232.232", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07213-1.237.237", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07213-1.238.238", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07213-1.237.237", "start_pos": 237, "end_pos": 237, "uniprot_canonical_ac": "P07213-1", "length": 617, "uniprot_id": "TOM70_YEAST", "protein_name": "Mitochondrial import receptor subunit TOM70", "refseq_ac": "NP_014278", "refseq_name": "protein channel TOM70", "gene_name": "TOM70", "gene_names_uniprotkb": "TOM70; MAS70; N1905; OMP1", "gene_names_refseq": "MAS70; MOM72; OMP1; TOM70", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07213", "url": "https://www.uniprot.org/uniprotkb/P07213" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005065", "url": "https://www.yeastgenome.org/locus/S000005065", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213", "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": "SKLKEKFGDIDTATATPTEL", "down_seq": "TQPAKERKDKQENLPSVTSM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005065", "url": "https://www.yeastgenome.org/locus/S000005065" }, { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser237" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "174", "end_pos": "174" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P07213-1.228.228", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P07213-1.230.230", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07213-1.232.232", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07213-1.234.234", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07213-1.238.238", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07213-1.238.238", "start_pos": 238, "end_pos": 238, "uniprot_canonical_ac": "P07213-1", "length": 617, "uniprot_id": "TOM70_YEAST", "protein_name": "Mitochondrial import receptor subunit TOM70", "refseq_ac": "NP_014278", "refseq_name": "protein channel TOM70", "gene_name": "TOM70", "gene_names_uniprotkb": "TOM70; MAS70; N1905; OMP1", "gene_names_refseq": "MAS70; MOM72; OMP1; TOM70", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07213", "url": "https://www.uniprot.org/uniprotkb/P07213" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005065", "url": "https://www.yeastgenome.org/locus/S000005065", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213", "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": "KLKEKFGDIDTATATPTELS", "down_seq": "QPAKERKDKQENLPSVTSMA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005065", "url": "https://www.yeastgenome.org/locus/S000005065" }, { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr238" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "174", "end_pos": "174" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P07213-1.228.228", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07213-1.230.230", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07213-1.232.232", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07213-1.234.234", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07213-1.237.237", "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": "P07213-1.3.3", "start_pos": 3, "end_pos": 3, "uniprot_canonical_ac": "P07213-1", "length": 617, "uniprot_id": "TOM70_YEAST", "protein_name": "Mitochondrial import receptor subunit TOM70", "refseq_ac": "NP_014278", "refseq_name": "protein channel TOM70", "gene_name": "TOM70", "gene_names_uniprotkb": "TOM70; MAS70; N1905; OMP1", "gene_names_refseq": "MAS70; MOM72; OMP1; TOM70", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07213", "url": "https://www.uniprot.org/uniprotkb/P07213" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "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": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005065", "url": "https://www.yeastgenome.org/locus/S000005065", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213", "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": "MK", "down_seq": "FITRNKTAILATVAATGTAI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005065", "url": "https://www.yeastgenome.org/locus/S000005065" }, { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser3" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "174", "end_pos": "174" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "77", "end_pos": "77" }, { "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07213-1.520.520", "start_pos": 520, "end_pos": 520, "uniprot_canonical_ac": "P07213-1", "length": 617, "uniprot_id": "TOM70_YEAST", "protein_name": "Mitochondrial import receptor subunit TOM70", "refseq_ac": "NP_014278", "refseq_name": "protein channel TOM70", "gene_name": "TOM70", "gene_names_uniprotkb": "TOM70; MAS70; N1905; OMP1", "gene_names_refseq": "MAS70; MOM72; OMP1; TOM70", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07213", "url": "https://www.uniprot.org/uniprotkb/P07213" } ], "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": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "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": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005065", "url": "https://www.yeastgenome.org/locus/S000005065", "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": "GIYVGIAPLVGKATLLTRNP", "down_seq": "VENFIEATNLLEKASKLDPR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000005065", "url": "https://www.yeastgenome.org/locus/S000005065" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr520" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "174", "end_pos": "174" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "77", "end_pos": "77" }, { "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07213-1.596.596", "start_pos": 596, "end_pos": 596, "uniprot_canonical_ac": "P07213-1", "length": 617, "uniprot_id": "TOM70_YEAST", "protein_name": "Mitochondrial import receptor subunit TOM70", "refseq_ac": "NP_014278", "refseq_name": "protein channel TOM70", "gene_name": "TOM70", "gene_names_uniprotkb": "TOM70; MAS70; N1905; OMP1", "gene_names_refseq": "MAS70; MOM72; OMP1; TOM70", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07213", "url": "https://www.uniprot.org/uniprotkb/P07213" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "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": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005065", "url": "https://www.yeastgenome.org/locus/S000005065", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213", "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": "EEKLQAITFAEAAKVQQRIR", "down_seq": "DPVLAKKIQETLAKLREQGL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005065", "url": "https://www.yeastgenome.org/locus/S000005065" }, { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser596" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "174", "end_pos": "174" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "77", "end_pos": "77" }, { "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07213-1.65.65", "start_pos": 65, "end_pos": 65, "uniprot_canonical_ac": "P07213-1", "length": 617, "uniprot_id": "TOM70_YEAST", "protein_name": "Mitochondrial import receptor subunit TOM70", "refseq_ac": "NP_014278", "refseq_name": "protein channel TOM70", "gene_name": "TOM70", "gene_names_uniprotkb": "TOM70; MAS70; N1905; OMP1", "gene_names_refseq": "MAS70; MOM72; OMP1; TOM70", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07213", "url": "https://www.uniprot.org/uniprotkb/P07213" } ], "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": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213", "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": "NKDEKKDTKDSQKETEGAKK", "down_seq": "TAPSNPPIYPVSSNGEPDFS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser65" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "174", "end_pos": "174" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P07213-1.69.69", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P07213-1.77.77", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07213-1.78.78", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07213-1.69.69", "start_pos": 69, "end_pos": 69, "uniprot_canonical_ac": "P07213-1", "length": 617, "uniprot_id": "TOM70_YEAST", "protein_name": "Mitochondrial import receptor subunit TOM70", "refseq_ac": "NP_014278", "refseq_name": "protein channel TOM70", "gene_name": "TOM70", "gene_names_uniprotkb": "TOM70; MAS70; N1905; OMP1", "gene_names_refseq": "MAS70; MOM72; OMP1; TOM70", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07213", "url": "https://www.uniprot.org/uniprotkb/P07213" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000005065", "url": "https://www.yeastgenome.org/locus/S000005065", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213", "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": "KKDTKDSQKETEGAKKSTAP", "down_seq": "NPPIYPVSSNGEPDFSNKAN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005065", "url": "https://www.yeastgenome.org/locus/S000005065" }, { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser69" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "174", "end_pos": "174" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P07213-1.65.65", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07213-1.77.77", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07213-1.78.78", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07213-1.77.77", "start_pos": 77, "end_pos": 77, "uniprot_canonical_ac": "P07213-1", "length": 617, "uniprot_id": "TOM70_YEAST", "protein_name": "Mitochondrial import receptor subunit TOM70", "refseq_ac": "NP_014278", "refseq_name": "protein channel TOM70", "gene_name": "TOM70", "gene_names_uniprotkb": "TOM70; MAS70; N1905; OMP1", "gene_names_refseq": "MAS70; MOM72; OMP1; TOM70", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07213", "url": "https://www.uniprot.org/uniprotkb/P07213" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "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": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005065", "url": "https://www.yeastgenome.org/locus/S000005065", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213", "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": "KETEGAKKSTAPSNPPIYPV", "down_seq": "SNGEPDFSNKANFTAEEKDK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005065", "url": "https://www.yeastgenome.org/locus/S000005065" }, { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser77" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "174", "end_pos": "174" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P07213-1.65.65", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07213-1.69.69", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07213-1.78.78", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07213-1.78.78", "start_pos": 78, "end_pos": 78, "uniprot_canonical_ac": "P07213-1", "length": 617, "uniprot_id": "TOM70_YEAST", "protein_name": "Mitochondrial import receptor subunit TOM70", "refseq_ac": "NP_014278", "refseq_name": "protein channel TOM70", "gene_name": "TOM70", "gene_names_uniprotkb": "TOM70; MAS70; N1905; OMP1", "gene_names_refseq": "MAS70; MOM72; OMP1; TOM70", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07213", "url": "https://www.uniprot.org/uniprotkb/P07213" } ], "common_name": "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": "P07213", "url": "https://www.uniprot.org/uniprotkb/P07213" }, { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "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": "P07213", "url": "https://www.uniprot.org/uniprotkb/P07213" }, { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "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": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "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": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213", "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": "S000005065", "url": "https://www.yeastgenome.org/locus/S000005065", "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": "ETEGAKKSTAPSNPPIYPVS", "down_seq": "NGEPDFSNKANFTAEEKDKY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07213" }, { "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": "S000005065", "url": "https://www.yeastgenome.org/locus/S000005065" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser78" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "174", "end_pos": "174" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P07213-1.65.65", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P07213-1.69.69", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07213-1.77.77", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07244-1.247.247", "start_pos": 247, "end_pos": 247, "uniprot_canonical_ac": "P07244-1", "length": 802, "uniprot_id": "PUR2_YEAST", "protein_name": "Bifunctional purine biosynthetic protein ADE5,7", "refseq_ac": "NP_011280", "refseq_name": "bifunctional aminoimidazole ribotide synthase/glycinamide ribotide synthase", "gene_name": "ADE57", "gene_names_uniprotkb": "ADE57; ADE5,7", "gene_names_refseq": "ADE57", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07244", "url": "https://www.uniprot.org/uniprotkb/P07244" } ], "common_name": "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": "P07244", "url": "https://www.uniprot.org/uniprotkb/P07244" }, { "database": "iPTMnet", "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" } ], "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": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" } ], "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": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003203", "url": "https://www.yeastgenome.org/locus/S000003203", "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": "DGDKGLNTGGMGAYAPAPVA", "down_seq": "PSLLKTIDSQIVKPTIDGMR", "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": "Thr247", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000003203", "url": "https://www.yeastgenome.org/locus/S000003203" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr247" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "247", "end_pos": "247" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P07244-1.249.249", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07244-1.165.165", "start_pos": 165, "end_pos": 165, "uniprot_canonical_ac": "P07244-1", "length": 802, "uniprot_id": "PUR2_YEAST", "protein_name": "Bifunctional purine biosynthetic protein ADE5,7", "refseq_ac": "NP_011280", "refseq_name": "bifunctional aminoimidazole ribotide synthase/glycinamide ribotide synthase", "gene_name": "ADE57", "gene_names_uniprotkb": "ADE57; ADE5,7", "gene_names_refseq": "ADE57", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07244", "url": "https://www.uniprot.org/uniprotkb/P07244" } ], "common_name": "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": "P07244", "url": "https://www.uniprot.org/uniprotkb/P07244" }, { "database": "iPTMnet", "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" } ], "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": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" } ], "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": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244", "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": "S000003203", "url": "https://www.yeastgenome.org/locus/S000003203", "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": "DKAFVIKADGIAAGKGVIIP", "down_seq": "SIDESVQAIKDIMVTKQFGE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" }, { "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": "S000003203", "url": "https://www.yeastgenome.org/locus/S000003203" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser165" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "247", "end_pos": "247" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07244-1.18.18", "start_pos": 18, "end_pos": 18, "uniprot_canonical_ac": "P07244-1", "length": 802, "uniprot_id": "PUR2_YEAST", "protein_name": "Bifunctional purine biosynthetic protein ADE5,7", "refseq_ac": "NP_011280", "refseq_name": "bifunctional aminoimidazole ribotide synthase/glycinamide ribotide synthase", "gene_name": "ADE57", "gene_names_uniprotkb": "ADE57; ADE5,7", "gene_names_refseq": "ADE57", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07244", "url": "https://www.uniprot.org/uniprotkb/P07244" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "SUMO is a pervasive regulator of meiosis.", "journal": "eLife", "date": "2021-01-27", "authors": "Bhagwat Nikhil R, Owens Shannon N, Ito Masaru, Boinapalli Jay V, Poa Philip, Ditzel Alexander, Kopparapu Srujan, Mahalawat Meghan, Davies Owen Richard, Collins Sean R, Johnson Jeffrey R, Krogan Nevan J, Hunter Neil", "evidence": [ { "database": "iPTMnet", "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" } ], "reference": [ { "type": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ] } ], "crossref": [ { "id": "S000003203", "url": "https://www.yeastgenome.org/locus/S000003203", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "MLNILVLGNGAREHVLV", "down_seq": "KLAQSPTVGKIYVAPGNGGT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003203", "url": "https://www.yeastgenome.org/locus/S000003203" }, { "database": "iPTMnet", "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" }, { "database": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ], "site_lbl": "Thr18" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "247", "end_pos": "247" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P07244-1.23.23", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07244-1.25.25", "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": "P07244-1.23.23", "start_pos": 23, "end_pos": 23, "uniprot_canonical_ac": "P07244-1", "length": 802, "uniprot_id": "PUR2_YEAST", "protein_name": "Bifunctional purine biosynthetic protein ADE5,7", "refseq_ac": "NP_011280", "refseq_name": "bifunctional aminoimidazole ribotide synthase/glycinamide ribotide synthase", "gene_name": "ADE57", "gene_names_uniprotkb": "ADE57; ADE5,7", "gene_names_refseq": "ADE57", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07244", "url": "https://www.uniprot.org/uniprotkb/P07244" } ], "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": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" } ], "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": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" } ], "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": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" } ], "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": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003203", "url": "https://www.yeastgenome.org/locus/S000003203", "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": "NILVLGNGAREHVLVTKLAQ", "down_seq": "PTVGKIYVAPGNGGTATMDP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000003203", "url": "https://www.yeastgenome.org/locus/S000003203" }, { "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": "Ser23" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "247", "end_pos": "247" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P07244-1.18.18", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07244-1.25.25", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07244-1.249.249", "start_pos": 249, "end_pos": 249, "uniprot_canonical_ac": "P07244-1", "length": 802, "uniprot_id": "PUR2_YEAST", "protein_name": "Bifunctional purine biosynthetic protein ADE5,7", "refseq_ac": "NP_011280", "refseq_name": "bifunctional aminoimidazole ribotide synthase/glycinamide ribotide synthase", "gene_name": "ADE57", "gene_names_uniprotkb": "ADE57; ADE5,7", "gene_names_refseq": "ADE57", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07244", "url": "https://www.uniprot.org/uniprotkb/P07244" } ], "common_name": "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": "P07244", "url": "https://www.uniprot.org/uniprotkb/P07244" }, { "database": "iPTMnet", "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "S000003203", "url": "https://www.yeastgenome.org/locus/S000003203", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244", "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": "DKGLNTGGMGAYAPAPVATP", "down_seq": "LLKTIDSQIVKPTIDGMRRD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003203", "url": "https://www.yeastgenome.org/locus/S000003203" }, { "database": "iPTMnet", "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ], "site_lbl": "Ser249" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "247", "end_pos": "247" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07244-1.247.247", "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": "P07244-1.25.25", "start_pos": 25, "end_pos": 25, "uniprot_canonical_ac": "P07244-1", "length": 802, "uniprot_id": "PUR2_YEAST", "protein_name": "Bifunctional purine biosynthetic protein ADE5,7", "refseq_ac": "NP_011280", "refseq_name": "bifunctional aminoimidazole ribotide synthase/glycinamide ribotide synthase", "gene_name": "ADE57", "gene_names_uniprotkb": "ADE57; ADE5,7", "gene_names_refseq": "ADE57", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07244", "url": "https://www.uniprot.org/uniprotkb/P07244" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003203", "url": "https://www.yeastgenome.org/locus/S000003203", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244", "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": "LVLGNGAREHVLVTKLAQSP", "down_seq": "VGKIYVAPGNGGTATMDPSR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003203", "url": "https://www.yeastgenome.org/locus/S000003203" }, { "database": "iPTMnet", "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr25" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "247", "end_pos": "247" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P07244-1.18.18", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07244-1.23.23", "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": "P07244-1.402.402", "start_pos": 402, "end_pos": 402, "uniprot_canonical_ac": "P07244-1", "length": 802, "uniprot_id": "PUR2_YEAST", "protein_name": "Bifunctional purine biosynthetic protein ADE5,7", "refseq_ac": "NP_011280", "refseq_name": "bifunctional aminoimidazole ribotide synthase/glycinamide ribotide synthase", "gene_name": "ADE57", "gene_names_uniprotkb": "ADE57; ADE5,7", "gene_names_refseq": "ADE57", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07244", "url": "https://www.uniprot.org/uniprotkb/P07244" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003203", "url": "https://www.yeastgenome.org/locus/S000003203", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244", "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": "AGTKYDSATDSLLTNGGRVL", "down_seq": "VTSTAQDLRTAVDTVYEAVK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003203", "url": "https://www.yeastgenome.org/locus/S000003203" }, { "database": "iPTMnet", "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser402" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "247", "end_pos": "247" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P07244-1.406.406", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07244-1.406.406", "start_pos": 406, "end_pos": 406, "uniprot_canonical_ac": "P07244-1", "length": 802, "uniprot_id": "PUR2_YEAST", "protein_name": "Bifunctional purine biosynthetic protein ADE5,7", "refseq_ac": "NP_011280", "refseq_name": "bifunctional aminoimidazole ribotide synthase/glycinamide ribotide synthase", "gene_name": "ADE57", "gene_names_uniprotkb": "ADE57; ADE5,7", "gene_names_refseq": "ADE57", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07244", "url": "https://www.uniprot.org/uniprotkb/P07244" } ], "common_name": "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": "P07244", "url": "https://www.uniprot.org/uniprotkb/P07244" }, { "database": "iPTMnet", "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" } ], "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": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003203", "url": "https://www.yeastgenome.org/locus/S000003203", "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": "YDSATDSLLTNGGRVLSVTS", "down_seq": "AQDLRTAVDTVYEAVKCVHF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000003203", "url": "https://www.yeastgenome.org/locus/S000003203" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr406" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "247", "end_pos": "247" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P07244-1.402.402", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07244-1.452.452", "start_pos": 452, "end_pos": 452, "uniprot_canonical_ac": "P07244-1", "length": 802, "uniprot_id": "PUR2_YEAST", "protein_name": "Bifunctional purine biosynthetic protein ADE5,7", "refseq_ac": "NP_011280", "refseq_name": "bifunctional aminoimidazole ribotide synthase/glycinamide ribotide synthase", "gene_name": "ADE57", "gene_names_uniprotkb": "ADE57; ADE5,7", "gene_names_refseq": "ADE57", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07244", "url": "https://www.uniprot.org/uniprotkb/P07244" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003203", "url": "https://www.yeastgenome.org/locus/S000003203", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244", "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": "RKDIAYRAFQNSESSKVAIT", "down_seq": "ADSGVSVDNGNNLVQTIKEM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003203", "url": "https://www.yeastgenome.org/locus/S000003203" }, { "database": "iPTMnet", "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr452" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "247", "end_pos": "247" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P07244-1.455.455", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07244-1.458.458", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07244-1.455.455", "start_pos": 455, "end_pos": 455, "uniprot_canonical_ac": "P07244-1", "length": 802, "uniprot_id": "PUR2_YEAST", "protein_name": "Bifunctional purine biosynthetic protein ADE5,7", "refseq_ac": "NP_011280", "refseq_name": "bifunctional aminoimidazole ribotide synthase/glycinamide ribotide synthase", "gene_name": "ADE57", "gene_names_uniprotkb": "ADE57; ADE5,7", "gene_names_refseq": "ADE57", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07244", "url": "https://www.uniprot.org/uniprotkb/P07244" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07244", "url": "https://www.uniprot.org/uniprotkb/P07244" }, { "database": "iPTMnet", "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" } ], "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": "P07244", "url": "https://www.uniprot.org/uniprotkb/P07244" }, { "database": "iPTMnet", "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" } ], "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": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07244", "url": "https://www.uniprot.org/uniprotkb/P07244", "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": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000003203", "url": "https://www.yeastgenome.org/locus/S000003203", "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": "IAYRAFQNSESSKVAITYAD", "down_seq": "GVSVDNGNNLVQTIKEMVRS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07244", "url": "https://www.uniprot.org/uniprotkb/P07244" }, { "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": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" }, { "database": "SGD", "id": "S000003203", "url": "https://www.yeastgenome.org/locus/S000003203" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser455" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "247", "end_pos": "247" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P07244-1.452.452", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07244-1.458.458", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07244-1.458.458", "start_pos": 458, "end_pos": 458, "uniprot_canonical_ac": "P07244-1", "length": 802, "uniprot_id": "PUR2_YEAST", "protein_name": "Bifunctional purine biosynthetic protein ADE5,7", "refseq_ac": "NP_011280", "refseq_name": "bifunctional aminoimidazole ribotide synthase/glycinamide ribotide synthase", "gene_name": "ADE57", "gene_names_uniprotkb": "ADE57; ADE5,7", "gene_names_refseq": "ADE57", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07244", "url": "https://www.uniprot.org/uniprotkb/P07244" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07244", "url": "https://www.uniprot.org/uniprotkb/P07244" }, { "database": "iPTMnet", "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" } ], "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": "P07244", "url": "https://www.uniprot.org/uniprotkb/P07244" }, { "database": "iPTMnet", "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" } ], "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": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07244", "url": "https://www.uniprot.org/uniprotkb/P07244", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003203", "url": "https://www.yeastgenome.org/locus/S000003203", "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": "RAFQNSESSKVAITYADSGV", "down_seq": "VDNGNNLVQTIKEMVRSTRR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07244", "url": "https://www.uniprot.org/uniprotkb/P07244" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P07244", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07244" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000003203", "url": "https://www.yeastgenome.org/locus/S000003203" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser458" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "247", "end_pos": "247" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P07244-1.452.452", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07244-1.455.455", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07245-1.384.384", "start_pos": 384, "end_pos": 384, "uniprot_canonical_ac": "P07245-1", "length": 946, "uniprot_id": "C1TC_YEAST", "protein_name": "C-1-tetrahydrofolate synthase, cytoplasmic", "refseq_ac": "NP_011720", "refseq_name": "trifunctional formate-tetrahydrofolate ligase/methenyltetrahydrofolate cyclohydrolase/methylenetetrahydrofolate dehydrogenase ADE3", "gene_name": "ADE3", "gene_names_uniprotkb": "ADE3; G7733", "gene_names_refseq": "ADE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" } ], "common_name": "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": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" }, { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "GLY_001160", "url": "https://data.glygen.org/GLY_001160", "database": "GlyGen", "categories": [ "Other" ] }, { "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "IERLQTRQNGKYILVSGITP", "down_seq": "PLGEGKSTTTMGLVQALTAH", "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": "Thr384", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436" } ], "site_lbl": "Thr384" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "384", "end_pos": "384" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "257", "end_pos": "257" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "894", "end_pos": "894" } ] } ], "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07245-1.11.11", "start_pos": 11, "end_pos": 11, "uniprot_canonical_ac": "P07245-1", "length": 946, "uniprot_id": "C1TC_YEAST", "protein_name": "C-1-tetrahydrofolate synthase, cytoplasmic", "refseq_ac": "NP_011720", "refseq_name": "trifunctional formate-tetrahydrofolate ligase/methenyltetrahydrofolate cyclohydrolase/methylenetetrahydrofolate dehydrogenase ADE3", "gene_name": "ADE3", "gene_names_uniprotkb": "ADE3; G7733", "gene_names_refseq": "ADE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis of yeast C1-tetrahydrofolate synthase: analysis of an overlapping active site in a multifunctional enzyme.", "journal": "Biochemistry", "date": "1989-03-07", "authors": "Barlowe C K, Williams M E, Rabinowitz J C, Appling D R", "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" } ], "reference": [ { "type": "PubMed", "id": "2541774", "url": "https://glygen.org/publication/PubMed/2541774" } ] } ], "crossref": [ { "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "2541774", "url": "https://glygen.org/publication/PubMed/2541774", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "C", "start_aa": "C", "up_seq": "MAGQVLDGKA", "down_seq": "AQQFRSNIANEIKSIQGHVP", "mutagenesis": [ { "sequence_org": "C", "sequence_mut": "S", "comment": "Almost no effect on activity.", "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" }, { "database": "PubMed", "id": "2541774", "url": "https://glygen.org/publication/PubMed/2541774" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "384", "end_pos": "384" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "257", "end_pos": "257" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "894", "end_pos": "894" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P07245-1.17.17", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07245-1.25.25", "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": "P07245-1.144.144", "start_pos": 144, "end_pos": 144, "uniprot_canonical_ac": "P07245-1", "length": 946, "uniprot_id": "C1TC_YEAST", "protein_name": "C-1-tetrahydrofolate synthase, cytoplasmic", "refseq_ac": "NP_011720", "refseq_name": "trifunctional formate-tetrahydrofolate ligase/methenyltetrahydrofolate cyclohydrolase/methylenetetrahydrofolate dehydrogenase ADE3", "gene_name": "ADE3", "gene_names_uniprotkb": "ADE3; G7733", "gene_names_refseq": "ADE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis of yeast C1-tetrahydrofolate synthase: analysis of an overlapping active site in a multifunctional enzyme.", "journal": "Biochemistry", "date": "1989-03-07", "authors": "Barlowe C K, Williams M E, Rabinowitz J C, Appling D R", "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" } ], "reference": [ { "type": "PubMed", "id": "2541774", "url": "https://glygen.org/publication/PubMed/2541774" } ] } ], "crossref": [ { "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "2541774", "url": "https://glygen.org/publication/PubMed/2541774", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "C", "start_aa": "C", "up_seq": "FGPTNIGELNKKNGHPFFLP", "down_seq": "TPKGIIELLHKANVTIEGSR", "mutagenesis": [ { "sequence_org": "C", "sequence_mut": "S", "comment": "Cyclohydrolase activity is reduced 20-fold. Dehydrogenase Km is increased 7-fold.", "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" }, { "database": "PubMed", "id": "2541774", "url": "https://glygen.org/publication/PubMed/2541774" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "384", "end_pos": "384" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "257", "end_pos": "257" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "894", "end_pos": "894" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P07245-1.145.145", "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": "P07245-1.257.257", "start_pos": 257, "end_pos": 257, "uniprot_canonical_ac": "P07245-1", "length": 946, "uniprot_id": "C1TC_YEAST", "protein_name": "C-1-tetrahydrofolate synthase, cytoplasmic", "refseq_ac": "NP_011720", "refseq_name": "trifunctional formate-tetrahydrofolate ligase/methenyltetrahydrofolate cyclohydrolase/methylenetetrahydrofolate dehydrogenase ADE3", "gene_name": "ADE3", "gene_names_uniprotkb": "ADE3; G7733", "gene_names_refseq": "ADE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis of yeast C1-tetrahydrofolate synthase: analysis of an overlapping active site in a multifunctional enzyme.", "journal": "Biochemistry", "date": "1989-03-07", "authors": "Barlowe C K, Williams M E, Rabinowitz J C, Appling D R", "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" } ], "reference": [ { "type": "PubMed", "id": "2541774", "url": "https://glygen.org/publication/PubMed/2541774" } ] } ], "crossref": [ { "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "2541774", "url": "https://glygen.org/publication/PubMed/2541774", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "C", "start_aa": "C", "up_seq": "VVIDVGTNYVADPSKKSGFK", "down_seq": "VGDVEFNEAIKYVHLITPVP", "mutagenesis": [ { "sequence_org": "C", "sequence_mut": "S", "comment": "Cyclohydrolase activity is increased 2-fold. Dehydrogenase Km is increased 2-fold.", "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" }, { "database": "PubMed", "id": "2541774", "url": "https://glygen.org/publication/PubMed/2541774" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "384", "end_pos": "384" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "257", "end_pos": "257" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "894", "end_pos": "894" } ] } ], "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": "P07245-1.145.145", "start_pos": 145, "end_pos": 145, "uniprot_canonical_ac": "P07245-1", "length": 946, "uniprot_id": "C1TC_YEAST", "protein_name": "C-1-tetrahydrofolate synthase, cytoplasmic", "refseq_ac": "NP_011720", "refseq_name": "trifunctional formate-tetrahydrofolate ligase/methenyltetrahydrofolate cyclohydrolase/methylenetetrahydrofolate dehydrogenase ADE3", "gene_name": "ADE3", "gene_names_uniprotkb": "ADE3; G7733", "gene_names_refseq": "ADE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245", "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": "GPTNIGELNKKNGHPFFLPC", "down_seq": "PKGIIELLHKANVTIEGSRS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436" }, { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr145" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "384", "end_pos": "384" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "257", "end_pos": "257" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "894", "end_pos": "894" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P07245-1.144.144", "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": "P07245-1.171.171", "start_pos": 171, "end_pos": 171, "uniprot_canonical_ac": "P07245-1", "length": 946, "uniprot_id": "C1TC_YEAST", "protein_name": "C-1-tetrahydrofolate synthase, cytoplasmic", "refseq_ac": "NP_011720", "refseq_name": "trifunctional formate-tetrahydrofolate ligase/methenyltetrahydrofolate cyclohydrolase/methylenetetrahydrofolate dehydrogenase ADE3", "gene_name": "ADE3", "gene_names_uniprotkb": "ADE3; G7733", "gene_names_refseq": "ADE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245", "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": "ELLHKANVTIEGSRSVVIGR", "down_seq": "DIVGSPVAELLKSLNSTVTI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436" }, { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser171" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "384", "end_pos": "384" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "257", "end_pos": "257" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "894", "end_pos": "894" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P07245-1.176.176", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07245-1.184.184", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07245-1.176.176", "start_pos": 176, "end_pos": 176, "uniprot_canonical_ac": "P07245-1", "length": 946, "uniprot_id": "C1TC_YEAST", "protein_name": "C-1-tetrahydrofolate synthase, cytoplasmic", "refseq_ac": "NP_011720", "refseq_name": "trifunctional formate-tetrahydrofolate ligase/methenyltetrahydrofolate cyclohydrolase/methylenetetrahydrofolate dehydrogenase ADE3", "gene_name": "ADE3", "gene_names_uniprotkb": "ADE3; G7733", "gene_names_refseq": "ADE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" } ], "common_name": "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": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" }, { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "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": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" }, { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "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": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245", "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": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436", "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": "ANVTIEGSRSVVIGRSDIVG", "down_seq": "PVAELLKSLNSTVTITHSKT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" }, { "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": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" }, { "database": "SGD", "id": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser176" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "384", "end_pos": "384" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "257", "end_pos": "257" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "894", "end_pos": "894" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P07245-1.171.171", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07245-1.184.184", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P07245-1.194.194", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07245-1.17.17", "start_pos": 17, "end_pos": 17, "uniprot_canonical_ac": "P07245-1", "length": 946, "uniprot_id": "C1TC_YEAST", "protein_name": "C-1-tetrahydrofolate synthase, cytoplasmic", "refseq_ac": "NP_011720", "refseq_name": "trifunctional formate-tetrahydrofolate ligase/methenyltetrahydrofolate cyclohydrolase/methylenetetrahydrofolate dehydrogenase ADE3", "gene_name": "ADE3", "gene_names_uniprotkb": "ADE3; G7733", "gene_names_refseq": "ADE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245", "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": "MAGQVLDGKACAQQFR", "down_seq": "NIANEIKSIQGHVPGFAPNL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436" }, { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser17" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "384", "end_pos": "384" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "257", "end_pos": "257" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "894", "end_pos": "894" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P07245-1.11.11", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07245-1.25.25", "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": "P07245-1.184.184", "start_pos": 184, "end_pos": 184, "uniprot_canonical_ac": "P07245-1", "length": 946, "uniprot_id": "C1TC_YEAST", "protein_name": "C-1-tetrahydrofolate synthase, cytoplasmic", "refseq_ac": "NP_011720", "refseq_name": "trifunctional formate-tetrahydrofolate ligase/methenyltetrahydrofolate cyclohydrolase/methylenetetrahydrofolate dehydrogenase ADE3", "gene_name": "ADE3", "gene_names_uniprotkb": "ADE3; G7733", "gene_names_refseq": "ADE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RSVVIGRSDIVGSPVAELLK", "down_seq": "LNSTVTITHSKTRDIASYLH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436" }, { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser184" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "384", "end_pos": "384" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "257", "end_pos": "257" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "894", "end_pos": "894" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P07245-1.171.171", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07245-1.176.176", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07245-1.194.194", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07245-1.194.194", "start_pos": 194, "end_pos": 194, "uniprot_canonical_ac": "P07245-1", "length": 946, "uniprot_id": "C1TC_YEAST", "protein_name": "C-1-tetrahydrofolate synthase, cytoplasmic", "refseq_ac": "NP_011720", "refseq_name": "trifunctional formate-tetrahydrofolate ligase/methenyltetrahydrofolate cyclohydrolase/methylenetetrahydrofolate dehydrogenase ADE3", "gene_name": "ADE3", "gene_names_uniprotkb": "ADE3; G7733", "gene_names_refseq": "ADE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VGSPVAELLKSLNSTVTITH", "down_seq": "KTRDIASYLHDADIVVVAIG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436" }, { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser194" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "384", "end_pos": "384" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "257", "end_pos": "257" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "894", "end_pos": "894" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P07245-1.176.176", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P07245-1.184.184", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07245-1.25.25", "start_pos": 25, "end_pos": 25, "uniprot_canonical_ac": "P07245-1", "length": 946, "uniprot_id": "C1TC_YEAST", "protein_name": "C-1-tetrahydrofolate synthase, cytoplasmic", "refseq_ac": "NP_011720", "refseq_name": "trifunctional formate-tetrahydrofolate ligase/methenyltetrahydrofolate cyclohydrolase/methylenetetrahydrofolate dehydrogenase ADE3", "gene_name": "ADE3", "gene_names_uniprotkb": "ADE3; G7733", "gene_names_refseq": "ADE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VLDGKACAQQFRSNIANEIK", "down_seq": "IQGHVPGFAPNLAIIQVGNR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436" }, { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser25" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "384", "end_pos": "384" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "257", "end_pos": "257" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "894", "end_pos": "894" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P07245-1.11.11", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07245-1.17.17", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07245-1.318.318", "start_pos": 318, "end_pos": 318, "uniprot_canonical_ac": "P07245-1", "length": 946, "uniprot_id": "C1TC_YEAST", "protein_name": "C-1-tetrahydrofolate synthase, cytoplasmic", "refseq_ac": "NP_011720", "refseq_name": "trifunctional formate-tetrahydrofolate ligase/methenyltetrahydrofolate cyclohydrolase/methylenetetrahydrofolate dehydrogenase ADE3", "gene_name": "ADE3", "gene_names_uniprotkb": "ADE3; G7733", "gene_names_refseq": "ADE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" }, { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "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": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" }, { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "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": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "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": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "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": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "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": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "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": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245", "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": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436", "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": "RQMEESSKPLQIPPLPLKLL", "down_seq": "PVPSDIDISRAQQPKLINQL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" }, { "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": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436" }, { "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": "Thr318" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "384", "end_pos": "384" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "257", "end_pos": "257" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "894", "end_pos": "894" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P07245-1.322.322", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07245-1.327.327", "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": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07245-1.322.322", "start_pos": 322, "end_pos": 322, "uniprot_canonical_ac": "P07245-1", "length": 946, "uniprot_id": "C1TC_YEAST", "protein_name": "C-1-tetrahydrofolate synthase, cytoplasmic", "refseq_ac": "NP_011720", "refseq_name": "trifunctional formate-tetrahydrofolate ligase/methenyltetrahydrofolate cyclohydrolase/methylenetetrahydrofolate dehydrogenase ADE3", "gene_name": "ADE3", "gene_names_uniprotkb": "ADE3; G7733", "gene_names_refseq": "ADE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" }, { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "J. Proteome Res.", "date": "2007", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" }, { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "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": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" }, { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "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": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "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": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245", "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": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436", "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": "ESSKPLQIPPLPLKLLTPVP", "down_seq": "DIDISRAQQPKLINQLAQEL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" }, { "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": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436" }, { "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": "Ser322" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "384", "end_pos": "384" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "257", "end_pos": "257" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "894", "end_pos": "894" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P07245-1.318.318", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07245-1.327.327", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07245-1.327.327", "start_pos": 327, "end_pos": 327, "uniprot_canonical_ac": "P07245-1", "length": 946, "uniprot_id": "C1TC_YEAST", "protein_name": "C-1-tetrahydrofolate synthase, cytoplasmic", "refseq_ac": "NP_011720", "refseq_name": "trifunctional formate-tetrahydrofolate ligase/methenyltetrahydrofolate cyclohydrolase/methylenetetrahydrofolate dehydrogenase ADE3", "gene_name": "ADE3", "gene_names_uniprotkb": "ADE3; G7733", "gene_names_refseq": "ADE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245", "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": "LQIPPLPLKLLTPVPSDIDI", "down_seq": "RAQQPKLINQLAQELGIYSH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436" }, { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser327" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "384", "end_pos": "384" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "257", "end_pos": "257" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "894", "end_pos": "894" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P07245-1.318.318", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07245-1.322.322", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07245-1.360.360", "start_pos": 360, "end_pos": 360, "uniprot_canonical_ac": "P07245-1", "length": 946, "uniprot_id": "C1TC_YEAST", "protein_name": "C-1-tetrahydrofolate synthase, cytoplasmic", "refseq_ac": "NP_011720", "refseq_name": "trifunctional formate-tetrahydrofolate ligase/methenyltetrahydrofolate cyclohydrolase/methylenetetrahydrofolate dehydrogenase ADE3", "gene_name": "ADE3", "gene_names_uniprotkb": "ADE3; G7733", "gene_names_refseq": "ADE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" } ], "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": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245", "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": "QELGIYSHELELYGHYKAKI", "down_seq": "PKVIERLQTRQNGKYILVSG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436" }, { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser360" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "384", "end_pos": "384" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "257", "end_pos": "257" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "894", "end_pos": "894" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07245-1.417.417", "start_pos": 417, "end_pos": 417, "uniprot_canonical_ac": "P07245-1", "length": 946, "uniprot_id": "C1TC_YEAST", "protein_name": "C-1-tetrahydrofolate synthase, cytoplasmic", "refseq_ac": "NP_011720", "refseq_name": "trifunctional formate-tetrahydrofolate ligase/methenyltetrahydrofolate cyclohydrolase/methylenetetrahydrofolate dehydrogenase ADE3", "gene_name": "ADE3", "gene_names_uniprotkb": "ADE3; G7733", "gene_names_refseq": "ADE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" } ], "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": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245", "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": "LVQALTAHLGKPAIANVRQP", "down_seq": "LGPTLGVKGGAAGGGYSQVI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436" }, { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser417" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "384", "end_pos": "384" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "257", "end_pos": "257" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "894", "end_pos": "894" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07245-1.479.479", "start_pos": 479, "end_pos": 479, "uniprot_canonical_ac": "P07245-1", "length": 946, "uniprot_id": "C1TC_YEAST", "protein_name": "C-1-tetrahydrofolate synthase, cytoplasmic", "refseq_ac": "NP_011720", "refseq_name": "trifunctional formate-tetrahydrofolate ligase/methenyltetrahydrofolate cyclohydrolase/methylenetetrahydrofolate dehydrogenase ADE3", "gene_name": "ADE3", "gene_names_uniprotkb": "ADE3; G7733", "gene_names_refseq": "ADE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245", "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": "LLAAAIDTRMFHETTQKNDA", "down_seq": "FYNRLVPRKNGKRKFTPSMQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436" }, { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr479" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "384", "end_pos": "384" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "257", "end_pos": "257" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "894", "end_pos": "894" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07245-1.510.510", "start_pos": 510, "end_pos": 510, "uniprot_canonical_ac": "P07245-1", "length": 946, "uniprot_id": "C1TC_YEAST", "protein_name": "C-1-tetrahydrofolate synthase, cytoplasmic", "refseq_ac": "NP_011720", "refseq_name": "trifunctional formate-tetrahydrofolate ligase/methenyltetrahydrofolate cyclohydrolase/methylenetetrahydrofolate dehydrogenase ADE3", "gene_name": "ADE3", "gene_names_uniprotkb": "ADE3; G7733", "gene_names_refseq": "ADE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" } ], "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": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "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": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "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": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "GKRKFTPSMQRRLNRLGIQK", "down_seq": "NPDDLTPEEINKFARLNIDP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436" }, { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" }, { "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": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr510" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "384", "end_pos": "384" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "257", "end_pos": "257" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "894", "end_pos": "894" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07245-1.603.603", "start_pos": 603, "end_pos": 603, "uniprot_canonical_ac": "P07245-1", "length": 946, "uniprot_id": "C1TC_YEAST", "protein_name": "C-1-tetrahydrofolate synthase, cytoplasmic", "refseq_ac": "NP_011720", "refseq_name": "trifunctional formate-tetrahydrofolate ligase/methenyltetrahydrofolate cyclohydrolase/methylenetetrahydrofolate dehydrogenase ADE3", "gene_name": "ADE3", "gene_names_uniprotkb": "ADE3; G7733", "gene_names_refseq": "ADE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DLRDMKERIGRVVVAADVNR", "down_seq": "PVTVEDVGCTGALTALLRDA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436" }, { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser603" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "384", "end_pos": "384" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "257", "end_pos": "257" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "894", "end_pos": "894" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07245-1.884.884", "start_pos": 884, "end_pos": 884, "uniprot_canonical_ac": "P07245-1", "length": 946, "uniprot_id": "C1TC_YEAST", "protein_name": "C-1-tetrahydrofolate synthase, cytoplasmic", "refseq_ac": "NP_011720", "refseq_name": "trifunctional formate-tetrahydrofolate ligase/methenyltetrahydrofolate cyclohydrolase/methylenetetrahydrofolate dehydrogenase ADE3", "gene_name": "ADE3", "gene_names_uniprotkb": "ADE3; G7733", "gene_names_refseq": "ADE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "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": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245", "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": "YKEQGFGNLPICIAKTQYSL", "down_seq": "HDATLKGVPTGFTFPIRDVR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436" }, { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser884" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "384", "end_pos": "384" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "257", "end_pos": "257" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "894", "end_pos": "894" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "upstream", "id": "P07245-1.894.894", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07245-1.894.894", "start_pos": 894, "end_pos": 894, "uniprot_canonical_ac": "P07245-1", "length": 946, "uniprot_id": "C1TC_YEAST", "protein_name": "C-1-tetrahydrofolate synthase, cytoplasmic", "refseq_ac": "NP_011720", "refseq_name": "trifunctional formate-tetrahydrofolate ligase/methenyltetrahydrofolate cyclohydrolase/methylenetetrahydrofolate dehydrogenase ADE3", "gene_name": "ADE3", "gene_names_uniprotkb": "ADE3; G7733", "gene_names_refseq": "ADE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" } ], "common_name": "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": "P07245", "url": "https://www.uniprot.org/uniprotkb/P07245" }, { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "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": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436", "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": "ICIAKTQYSLSHDATLKGVP", "down_seq": "GFTFPIRDVRLSNGAGYLYA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07245", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07245" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000003436", "url": "https://www.yeastgenome.org/locus/S000003436" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr894" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "384", "end_pos": "384" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "257", "end_pos": "257" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "894", "end_pos": "894" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P07245-1.884.884", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07246-1.310.310", "start_pos": 310, "end_pos": 310, "uniprot_canonical_ac": "P07246-1", "length": 375, "uniprot_id": "ADH3_YEAST", "protein_name": "Alcohol dehydrogenase 3, mitochondrial", "refseq_ac": "NP_013800", "refseq_name": "alcohol dehydrogenase ADH3", "gene_name": "ADH3", "gene_names_uniprotkb": "ADH3; YM9582.08", "gene_names_refseq": "ADH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07246", "url": "https://www.uniprot.org/uniprotkb/P07246" } ], "common_name": "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": "P07246", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07246" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P07246", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07246", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004688", "url": "https://www.yeastgenome.org/locus/S000004688", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "CGTVVLVGLPANAYVKSEVF", "down_seq": "HVVKSINIKGSYVGNRADTR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07246", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07246" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000004688", "url": "https://www.yeastgenome.org/locus/S000004688" } ], "site_lbl": "Ser310" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "310", "end_pos": "310" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "343", "end_pos": "343" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07246-1.337.337", "start_pos": 337, "end_pos": 337, "uniprot_canonical_ac": "P07246-1", "length": 375, "uniprot_id": "ADH3_YEAST", "protein_name": "Alcohol dehydrogenase 3, mitochondrial", "refseq_ac": "NP_013800", "refseq_name": "alcohol dehydrogenase ADH3", "gene_name": "ADH3", "gene_names_uniprotkb": "ADH3; YM9582.08", "gene_names_refseq": "ADH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07246", "url": "https://www.uniprot.org/uniprotkb/P07246" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07246", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07246" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004688", "url": "https://www.yeastgenome.org/locus/S000004688", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07246", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07246", "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": "NIKGSYVGNRADTREALDFF", "down_seq": "RGLIKSPIKIVGLSELPKVY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004688", "url": "https://www.yeastgenome.org/locus/S000004688" }, { "database": "iPTMnet", "id": "P07246", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07246" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser337" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "310", "end_pos": "310" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "343", "end_pos": "343" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P07246-1.343.343", "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": "P07246-1.343.343", "start_pos": 343, "end_pos": 343, "uniprot_canonical_ac": "P07246-1", "length": 375, "uniprot_id": "ADH3_YEAST", "protein_name": "Alcohol dehydrogenase 3, mitochondrial", "refseq_ac": "NP_013800", "refseq_name": "alcohol dehydrogenase ADH3", "gene_name": "ADH3", "gene_names_uniprotkb": "ADH3; YM9582.08", "gene_names_refseq": "ADH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07246", "url": "https://www.uniprot.org/uniprotkb/P07246" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07246", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07246" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004688", "url": "https://www.yeastgenome.org/locus/S000004688", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07246", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07246", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VGNRADTREALDFFSRGLIK", "down_seq": "PIKIVGLSELPKVYDLMEKG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004688", "url": "https://www.yeastgenome.org/locus/S000004688" }, { "database": "iPTMnet", "id": "P07246", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07246" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser343" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "310", "end_pos": "310" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "343", "end_pos": "343" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P07246-1.337.337", "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": "P07248-1.106.106", "start_pos": 106, "end_pos": 106, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "C", "start_aa": "C", "up_seq": "LPENLRLNGRTPSGKLRSFV", "down_seq": "EVCTRAFARQEHLKRHYRSH", "mutagenesis": [ { "sequence_org": "C", "sequence_mut": "Y", "comment": "Suppresses activity.", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P07248-1.98.98", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07248-1.109.109", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07248-1.114.114", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P07248-1.118.118", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P07248-1.122.122", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "P07248-1.109.109", "start_pos": 109, "end_pos": 109, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "C", "start_aa": "C", "up_seq": "NLRLNGRTPSGKLRSFVCEV", "down_seq": "TRAFARQEHLKRHYRSHTNE", "mutagenesis": [ { "sequence_org": "C", "sequence_mut": "Y", "comment": "Suppresses activity.", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P07248-1.98.98", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07248-1.106.106", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07248-1.114.114", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07248-1.118.118", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07248-1.122.122", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P07248-1.127.127", "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": 0 } ], "sort_fields": [] } ] }, { "id": "P07248-1.114.114", "start_pos": 114, "end_pos": 114, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "A", "start_aa": "A", "up_seq": "GRTPSGKLRSFVCEVCTRAF", "down_seq": "RQEHLKRHYRSHTNEKPYPC", "mutagenesis": [ { "sequence_org": "A", "sequence_mut": "V", "comment": "Lowers activity.", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P07248-1.98.98", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07248-1.106.106", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07248-1.109.109", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07248-1.118.118", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07248-1.122.122", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07248-1.127.127", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07248-1.134.134", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "P07248-1.118.118", "start_pos": 118, "end_pos": 118, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "H", "start_aa": "H", "up_seq": "SGKLRSFVCEVCTRAFARQE", "down_seq": "LKRHYRSHTNEKPYPCGLCN", "mutagenesis": [ { "sequence_org": "H", "sequence_mut": "Y", "comment": "Suppresses activity.", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07248-1.98.98", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P07248-1.106.106", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P07248-1.109.109", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07248-1.114.114", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07248-1.122.122", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07248-1.127.127", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P07248-1.134.134", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "P07248-1.122.122", "start_pos": 122, "end_pos": 122, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "H", "start_aa": "H", "up_seq": "RSFVCEVCTRAFARQEHLKR", "down_seq": "YRSHTNEKPYPCGLCNRCFT", "mutagenesis": [ { "sequence_org": "H", "sequence_mut": "Y", "comment": "Suppresses activity.", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P07248-1.106.106", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P07248-1.109.109", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07248-1.114.114", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07248-1.118.118", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07248-1.127.127", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P07248-1.134.134", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07248-1.142.142", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "P07248-1.134.134", "start_pos": 134, "end_pos": 134, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "C", "start_aa": "C", "up_seq": "ARQEHLKRHYRSHTNEKPYP", "down_seq": "GLCNRCFTRRDLLIRHAQKI", "mutagenesis": [ { "sequence_org": "C", "sequence_mut": "Y", "comment": "Suppresses activity.", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07248-1.114.114", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P07248-1.118.118", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P07248-1.122.122", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P07248-1.127.127", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07248-1.142.142", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "P07248-1.142.142", "start_pos": 142, "end_pos": 142, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "HYRSHTNEKPYPCGLCNRCF", "down_seq": "RRDLLIRHAQKIHSGNLGET", "mutagenesis": [ { "sequence_org": "T", "sequence_mut": "I", "comment": "Lowers activity.", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07248-1.122.122", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P07248-1.127.127", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07248-1.134.134", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "P07248-1.1062.1062", "start_pos": 1062, "end_pos": 1062, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "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": "IRNISSLYVEEESDCSQRMN", "down_seq": "PELPRIHLNNQALSVFNLQG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1062" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.1245.1245", "start_pos": 1245, "end_pos": 1245, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SAHFLSDTGLEGINFSGLND", "down_seq": "HQTVSTLNLLRYGENHSSKH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" } ], "site_lbl": "Ser1245" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P07248-1.1248.1248", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07248-1.1250.1250", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07248-1.1251.1251", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.1248.1248", "start_pos": 1248, "end_pos": 1248, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "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": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "FLSDTGLEGINFSGLNDSHQ", "down_seq": "VSTLNLLRYGENHSSKHKNG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ], "site_lbl": "Thr1248" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P07248-1.1245.1245", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07248-1.1250.1250", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07248-1.1251.1251", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.1250.1250", "start_pos": 1250, "end_pos": 1250, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SDTGLEGINFSGLNDSHQTV", "down_seq": "TLNLLRYGENHSSKHKNGGK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1250" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P07248-1.1245.1245", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07248-1.1248.1248", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07248-1.1251.1251", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07248-1.1251.1251", "start_pos": 1251, "end_pos": 1251, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "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": "DTGLEGINFSGLNDSHQTVS", "down_seq": "LNLLRYGENHSSKHKNGGKG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr1251" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P07248-1.1245.1245", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07248-1.1248.1248", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07248-1.1250.1250", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.127.127", "start_pos": 127, "end_pos": 127, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "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": "EVCTRAFARQEHLKRHYRSH", "down_seq": "NEKPYPCGLCNRCFTRRDLL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr127" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P07248-1.109.109", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P07248-1.114.114", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P07248-1.118.118", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07248-1.122.122", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07248-1.134.134", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07248-1.142.142", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.180.180", "start_pos": 180, "end_pos": 180, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "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": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "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": "GETISHTKKVSRTITKARKN", "down_seq": "ASSVKFQTPTYGTPDNGNFL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "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": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser180" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P07248-1.182.182", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07248-1.183.183", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07248-1.188.188", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07248-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07248-1.191.191", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07248-1.193.193", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.182.182", "start_pos": 182, "end_pos": 182, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "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": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "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": "TISHTKKVSRTITKARKNSA", "down_seq": "SVKFQTPTYGTPDNGNFLNR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "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": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser182" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07248-1.180.180", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07248-1.183.183", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07248-1.188.188", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07248-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07248-1.191.191", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07248-1.193.193", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.183.183", "start_pos": 183, "end_pos": 183, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "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": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ISHTKKVSRTITKARKNSAS", "down_seq": "VKFQTPTYGTPDNGNFLNRT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "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": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" } ], "site_lbl": "Ser183" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P07248-1.180.180", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07248-1.182.182", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07248-1.188.188", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07248-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07248-1.191.191", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07248-1.193.193", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.188.188", "start_pos": 188, "end_pos": 188, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "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": "KVSRTITKARKNSASSVKFQ", "down_seq": "PTYGTPDNGNFLNRTTANTR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr188" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P07248-1.180.180", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07248-1.182.182", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07248-1.183.183", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07248-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07248-1.191.191", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07248-1.193.193", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.190.190", "start_pos": 190, "end_pos": 190, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "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": "SRTITKARKNSASSVKFQTP", "down_seq": "YGTPDNGNFLNRTTANTRRK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr190" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P07248-1.180.180", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07248-1.182.182", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P07248-1.183.183", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07248-1.188.188", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07248-1.191.191", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07248-1.193.193", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.191.191", "start_pos": 191, "end_pos": 191, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "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": "RTITKARKNSASSVKFQTPT", "down_seq": "GTPDNGNFLNRTTANTRRKA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Tyr191" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P07248-1.180.180", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P07248-1.182.182", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07248-1.183.183", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07248-1.188.188", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07248-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07248-1.193.193", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.193.193", "start_pos": 193, "end_pos": 193, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "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": "ITKARKNSASSVKFQTPTYG", "down_seq": "PDNGNFLNRTTANTRRKASP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr193" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P07248-1.180.180", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P07248-1.182.182", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P07248-1.183.183", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07248-1.188.188", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07248-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07248-1.191.191", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P07248-1.212.212", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.212.212", "start_pos": 212, "end_pos": 212, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "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": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "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": "GTPDNGNFLNRTTANTRRKA", "down_seq": "PEANVKRKYLKKLTRRASFS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "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": "Ser212" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P07248-1.193.193", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P07248-1.230.230", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07248-1.232.232", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.230.230", "start_pos": 230, "end_pos": 230, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "ADR1c mutations enhance the ability of ADR1 to activate transcription by a mechanism that is independent of effects on cyclic AMP-dependent protein kinase phosphorylation of Ser-230.", "journal": "Molecular and cellular biology", "date": "1992-04", "authors": "Denis C L, Fontaine S C, Chase D, Kemp B E, Bemis L T", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "1549108", "url": "https://glygen.org/publication/PubMed/1549108" } ] }, { "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": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Substrate specificities for yeast and mammalian cAMP-dependent protein kinases are similar but not identical.", "journal": "The Journal of biological chemistry", "date": "1991-09-25", "authors": "Denis C L, Kemp B E, Zoller M J", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "1917932", "url": "https://glygen.org/publication/PubMed/1917932" } ] }, { "title": "Snf1 controls the activity of adr1 through dephosphorylation of Ser230.", "journal": "Genetics", "date": "2009-07", "authors": "Ratnakumar Sooraj, Kacherovsky Nataly, Arms Erin, Young Elton T", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "19398770", "url": "https://glygen.org/publication/PubMed/19398770" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Snf1 dependence of peroxisomal gene expression is mediated by Adr1.", "journal": "The Journal of biological chemistry", "date": "2010-04-02", "authors": "Ratnakumar Sooraj, Young Elton T", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "20139423", "url": "https://glygen.org/publication/PubMed/20139423" } ] }, { "title": "Isoform-specific purification and substrate specificity of the 5'-AMP-activated protein kinase.", "journal": "The Journal of biological chemistry", "date": "1996-11-08", "authors": "Michell B J, Stapleton D, Mitchelhill K I, House C M, Katsis F, Witters L A, Kemp B E", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "8910470", "url": "https://glygen.org/publication/PubMed/8910470" } ] }, { "title": "Characterization of a p53-related activation domain in Adr1p that is sufficient for ADR1-dependent gene expression.", "journal": "The Journal of biological chemistry", "date": "1998-11-27", "authors": "Young E T, Saario J, Kacherovsky N, Chao A, Sloan J S, Dombek K M", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "9822683", "url": "https://glygen.org/publication/PubMed/9822683" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "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": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] } ], "crossref": [ { "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "1549108", "url": "https://glygen.org/publication/PubMed/1549108", "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": "1917932", "url": "https://glygen.org/publication/PubMed/1917932", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19398770", "url": "https://glygen.org/publication/PubMed/19398770", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20139423", "url": "https://glygen.org/publication/PubMed/20139423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "8910470", "url": "https://glygen.org/publication/PubMed/8910470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "9822683", "url": "https://glygen.org/publication/PubMed/9822683", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "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" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KASPEANVKRKYLKKLTRRA", "down_seq": "FSAQSASSYALPDQSSLEQH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine; by PKA; in vitro", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "1549108", "url": "https://glygen.org/publication/PubMed/1549108" }, { "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": "1917932", "url": "https://glygen.org/publication/PubMed/1917932" }, { "database": "PubMed", "id": "19398770", "url": "https://glygen.org/publication/PubMed/19398770" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20139423", "url": "https://glygen.org/publication/PubMed/20139423" }, { "database": "PubMed", "id": "8910470", "url": "https://glygen.org/publication/PubMed/8910470" }, { "database": "PubMed", "id": "9822683", "url": "https://glygen.org/publication/PubMed/9822683" }, { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ], "site_lbl": "Ser230" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P07248-1.212.212", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07248-1.232.232", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07248-1.235.235", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07248-1.239.239", "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": 13 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.232.232", "start_pos": 232, "end_pos": 232, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "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": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] } ], "crossref": [ { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SPEANVKRKYLKKLTRRASF", "down_seq": "AQSASSYALPDQSSLEQHPK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ], "site_lbl": "Ser232" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07248-1.212.212", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07248-1.230.230", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07248-1.235.235", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07248-1.239.239", "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": "P07248-1.235.235", "start_pos": 235, "end_pos": 235, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ANVKRKYLKKLTRRASFSAQ", "down_seq": "ASSYALPDQSSLEQHPKDRV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" } ], "site_lbl": "Ser235" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P07248-1.230.230", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07248-1.232.232", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07248-1.239.239", "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": "P07248-1.239.239", "start_pos": 239, "end_pos": 239, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "RKYLKKLTRRASFSAQSASS", "down_seq": "ALPDQSSLEQHPKDRVKFST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" } ], "site_lbl": "Tyr239" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P07248-1.230.230", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P07248-1.232.232", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07248-1.235.235", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P07248-1.258.258", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07248-1.259.259", "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": "P07248-1.258.258", "start_pos": 258, "end_pos": 258, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SYALPDQSSLEQHPKDRVKF", "down_seq": "TPELVPLDLKNPELDSSFDL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" } ], "site_lbl": "Ser258" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P07248-1.239.239", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07248-1.259.259", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P07248-1.274.274", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.259.259", "start_pos": 259, "end_pos": 259, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "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": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "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": "T", "start_aa": "T", "up_seq": "YALPDQSSLEQHPKDRVKFS", "down_seq": "PELVPLDLKNPELDSSFDLN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "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": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "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": "Thr259" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07248-1.239.239", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07248-1.258.258", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07248-1.274.274", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.274.274", "start_pos": 274, "end_pos": 274, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RVKFSTPELVPLDLKNPELD", "down_seq": "SFDLNMNLDLNLNLDSNFNI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser274" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P07248-1.258.258", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P07248-1.259.259", "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": "P07248-1.299.299", "start_pos": 299, "end_pos": 299, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "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": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NMNLDLNLNLDSNFNIALNR", "down_seq": "DSSGSTMNLDYKLPESANNY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "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": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" } ], "site_lbl": "Ser299" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P07248-1.301.301", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07248-1.302.302", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07248-1.304.304", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07248-1.305.305", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07248-1.310.310", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P07248-1.315.315", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07248-1.319.319", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.301.301", "start_pos": 301, "end_pos": 301, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "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": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "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": "NLDLNLNLDSNFNIALNRSD", "down_seq": "SGSTMNLDYKLPESANNYTY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "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": "Ser301" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07248-1.299.299", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07248-1.302.302", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07248-1.304.304", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07248-1.305.305", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07248-1.310.310", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07248-1.315.315", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P07248-1.319.319", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.302.302", "start_pos": 302, "end_pos": 302, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LDLNLNLDSNFNIALNRSDS", "down_seq": "GSTMNLDYKLPESANNYTYS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser302" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P07248-1.299.299", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07248-1.301.301", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07248-1.304.304", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07248-1.305.305", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07248-1.310.310", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07248-1.315.315", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P07248-1.319.319", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07248-1.322.322", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.304.304", "start_pos": 304, "end_pos": 304, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "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": "LNLNLDSNFNIALNRSDSSG", "down_seq": "TMNLDYKLPESANNYTYSSG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "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": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "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": "Ser304" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P07248-1.299.299", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07248-1.301.301", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07248-1.302.302", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07248-1.305.305", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07248-1.310.310", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07248-1.315.315", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07248-1.319.319", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P07248-1.322.322", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P07248-1.323.323", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.305.305", "start_pos": 305, "end_pos": 305, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "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": "NLNLDSNFNIALNRSDSSGS", "down_seq": "MNLDYKLPESANNYTYSSGS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr305" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P07248-1.299.299", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07248-1.301.301", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07248-1.302.302", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07248-1.304.304", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07248-1.310.310", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07248-1.315.315", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07248-1.319.319", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P07248-1.322.322", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P07248-1.323.323", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07248-1.325.325", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.310.310", "start_pos": 310, "end_pos": 310, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "SNFNIALNRSDSSGSTMNLD", "down_seq": "KLPESANNYTYSSGSPTRAY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Tyr310" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P07248-1.299.299", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P07248-1.301.301", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07248-1.302.302", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07248-1.304.304", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07248-1.305.305", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07248-1.315.315", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07248-1.319.319", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P07248-1.322.322", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07248-1.323.323", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07248-1.325.325", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P07248-1.327.327", "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": "P07248-1.315.315", "start_pos": 315, "end_pos": 315, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "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": "ALNRSDSSGSTMNLDYKLPE", "down_seq": "ANNYTYSSGSPTRAYVGANT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser315" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P07248-1.299.299", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P07248-1.301.301", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P07248-1.302.302", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P07248-1.304.304", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P07248-1.305.305", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07248-1.310.310", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07248-1.319.319", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07248-1.322.322", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07248-1.323.323", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07248-1.325.325", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P07248-1.327.327", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.319.319", "start_pos": 319, "end_pos": 319, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "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": "SDSSGSTMNLDYKLPESANN", "down_seq": "TYSSGSPTRAYVGANTNSKN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Tyr319" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07248-1.299.299", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P07248-1.301.301", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P07248-1.302.302", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P07248-1.304.304", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P07248-1.305.305", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P07248-1.310.310", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07248-1.315.315", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07248-1.322.322", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07248-1.323.323", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07248-1.325.325", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07248-1.327.327", "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": "P07248-1.322.322", "start_pos": 322, "end_pos": 322, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "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": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SGSTMNLDYKLPESANNYTY", "down_seq": "SGSPTRAYVGANTNSKNASF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" } ], "site_lbl": "Ser322" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07248-1.302.302", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P07248-1.304.304", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P07248-1.305.305", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P07248-1.310.310", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P07248-1.315.315", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07248-1.319.319", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07248-1.323.323", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07248-1.325.325", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07248-1.327.327", "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": "P07248-1.323.323", "start_pos": 323, "end_pos": 323, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "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": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "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": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "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": "GSTMNLDYKLPESANNYTYS", "down_seq": "GSPTRAYVGANTNSKNASFN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "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": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser323" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P07248-1.304.304", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P07248-1.305.305", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P07248-1.310.310", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07248-1.315.315", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07248-1.319.319", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07248-1.322.322", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07248-1.325.325", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07248-1.327.327", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.325.325", "start_pos": 325, "end_pos": 325, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "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": "TMNLDYKLPESANNYTYSSG", "down_seq": "PTRAYVGANTNSKNASFNDA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "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": "Ser325" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07248-1.305.305", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P07248-1.310.310", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P07248-1.315.315", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07248-1.319.319", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07248-1.322.322", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07248-1.323.323", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07248-1.327.327", "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": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.327.327", "start_pos": 327, "end_pos": 327, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "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": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "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": "NLDYKLPESANNYTYSSGSP", "down_seq": "RAYVGANTNSKNASFNDADL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr327" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P07248-1.310.310", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P07248-1.315.315", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07248-1.319.319", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07248-1.322.322", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07248-1.323.323", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07248-1.325.325", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.351.351", "start_pos": 351, "end_pos": 351, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VGANTNSKNASFNDADLLSS", "down_seq": "YWIKAYNDHLFSVSESDETS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" } ], "site_lbl": "Ser351" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "upstream", "id": "P07248-1.365.365", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P07248-1.367.367", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P07248-1.370.370", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07248-1.371.371", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.365.365", "start_pos": 365, "end_pos": 365, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "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": "ADLLSSSYWIKAYNDHLFSV", "down_seq": "ESDETSPMNSELNDTKLIVP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser365" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P07248-1.351.351", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07248-1.367.367", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07248-1.370.370", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07248-1.371.371", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07248-1.375.375", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.367.367", "start_pos": 367, "end_pos": 367, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "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": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "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": "LLSSSYWIKAYNDHLFSVSE", "down_seq": "DETSPMNSELNDTKLIVPDF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "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": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser367" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P07248-1.351.351", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07248-1.365.365", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07248-1.370.370", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07248-1.371.371", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07248-1.375.375", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.370.370", "start_pos": 370, "end_pos": 370, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SSYWIKAYNDHLFSVSESDE", "down_seq": "SPMNSELNDTKLIVPDFKST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" } ], "site_lbl": "Thr370" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P07248-1.351.351", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07248-1.365.365", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07248-1.367.367", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07248-1.371.371", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07248-1.375.375", "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": "P07248-1.371.371", "start_pos": 371, "end_pos": 371, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "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": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "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": "SYWIKAYNDHLFSVSESDET", "down_seq": "PMNSELNDTKLIVPDFKSTI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "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": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser371" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07248-1.351.351", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07248-1.365.365", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07248-1.367.367", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07248-1.370.370", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07248-1.375.375", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.375.375", "start_pos": 375, "end_pos": 375, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "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": "KAYNDHLFSVSESDETSPMN", "down_seq": "ELNDTKLIVPDFKSTIHHLK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser375" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P07248-1.365.365", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07248-1.367.367", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07248-1.370.370", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07248-1.371.371", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.397.397", "start_pos": 397, "end_pos": 397, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "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": "LNDTKLIVPDFKSTIHHLKD", "down_seq": "RSSSWTVAIDNNSNNNKVSD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser397" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P07248-1.400.400", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07248-1.401.401", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07248-1.403.403", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.400.400", "start_pos": 400, "end_pos": 400, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "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": "TKLIVPDFKSTIHHLKDSRS", "down_seq": "SWTVAIDNNSNNNKVSDNQP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ], "site_lbl": "Ser400" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P07248-1.397.397", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07248-1.401.401", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07248-1.403.403", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.401.401", "start_pos": 401, "end_pos": 401, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "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": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "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": "KLIVPDFKSTIHHLKDSRSS", "down_seq": "WTVAIDNNSNNNKVSDNQPD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser401" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P07248-1.397.397", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07248-1.400.400", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07248-1.403.403", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07248-1.403.403", "start_pos": 403, "end_pos": 403, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "IVPDFKSTIHHLKDSRSSSW", "down_seq": "VAIDNNSNNNKVSDNQPDFV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" } ], "site_lbl": "Thr403" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P07248-1.397.397", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07248-1.400.400", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07248-1.401.401", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.473.473", "start_pos": 473, "end_pos": 473, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DDSVSATATSNEIDLSHLNL", "down_seq": "NSPISPHKLIYKNKEGTNDD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser473" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P07248-1.475.475", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07248-1.478.478", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.475.475", "start_pos": 475, "end_pos": 475, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "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": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "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": "SVSATATSNEIDLSHLNLSN", "down_seq": "PISPHKLIYKNKEGTNDDML", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser475" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07248-1.473.473", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07248-1.478.478", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.478.478", "start_pos": 478, "end_pos": 478, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ATATSNEIDLSHLNLSNSPI", "down_seq": "PHKLIYKNKEGTNDDMLISF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser478" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P07248-1.473.473", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07248-1.475.475", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.48.48", "start_pos": 48, "end_pos": 48, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NEKQEIEMETDDSPILLMSS", "down_seq": "ASRENSNTFSVIQRTPDGKI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser48" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P07248-1.50.50", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07248-1.54.54", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07248-1.63.63", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.50.50", "start_pos": 50, "end_pos": 50, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KQEIEMETDDSPILLMSSSA", "down_seq": "RENSNTFSVIQRTPDGKIIT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser50" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07248-1.48.48", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07248-1.54.54", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07248-1.63.63", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.536.536", "start_pos": 536, "end_pos": 536, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MTRDVQAIFSQYLKGEESKR", "down_seq": "LEDFLSTSNRKEKPDSGNYT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser536" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.54.54", "start_pos": 54, "end_pos": 54, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "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": "EMETDDSPILLMSSSASREN", "down_seq": "NTFSVIQRTPDGKIITTNNN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser54" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P07248-1.48.48", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07248-1.50.50", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07248-1.63.63", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.614.614", "start_pos": 614, "end_pos": 614, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PMRNMCIKVLRYYEKFSHDS", "down_seq": "ESVMDSNPNLLSKELLMPAV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser614" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P07248-1.620.620", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.620.620", "start_pos": 620, "end_pos": 620, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "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": "IKVLRYYEKFSHDSSESVMD", "down_seq": "NPNLLSKELLMPAVSELNEY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser620" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P07248-1.614.614", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07248-1.635.635", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.635.635", "start_pos": 635, "end_pos": 635, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ESVMDSNPNLLSKELLMPAV", "down_seq": "ELNEYLDLFKNNFLPHFPII", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" } ], "site_lbl": "Ser635" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P07248-1.620.620", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.63.63", "start_pos": 63, "end_pos": 63, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "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": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "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": "LLMSSSASRENSNTFSVIQR", "down_seq": "PDGKIITTNNNMNSKINKQL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr63" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P07248-1.48.48", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P07248-1.50.50", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P07248-1.54.54", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.938.938", "start_pos": 938, "end_pos": 938, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PEFLGSSMIYYEYDLRKGTK", "down_seq": "HVFLDRIDTKRLERSLDTSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" }, { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser938" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07248-1.98.98", "start_pos": 98, "end_pos": 98, "uniprot_canonical_ac": "P07248-1", "length": 1323, "uniprot_id": "ADR1_YEAST", "protein_name": "Regulatory protein ADR1", "refseq_ac": "NP_010502", "refseq_name": "DNA-binding transcription factor ADR1", "gene_name": "ADR1", "gene_names_uniprotkb": "ADR1; YD8142.16; YD8142B.08", "gene_names_refseq": "ADR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07248", "url": "https://www.uniprot.org/uniprotkb/P07248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Promoter binding by the Adr1 transcriptional activator may be regulated by phosphorylation in the DNA-binding region.", "journal": "PloS one", "date": "2008-09-15", "authors": "Kacherovsky Nataly, Tachibana Christine, Amos Emily, Fox David, Young Elton T", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" } ], "reference": [ { "type": "PubMed", "id": "18791642", "url": "https://glygen.org/publication/PubMed/18791642" } ] } ], "crossref": [ { "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18791642", "url": "https://glygen.org/publication/PubMed/18791642", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KINKQLDKLPENLRLNGRTP", "down_seq": "GKLRSFVCEVCTRAFARQEH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07248", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07248" }, { "database": "PubMed", "id": "18791642", "url": "https://glygen.org/publication/PubMed/18791642" }, { "database": "SGD", "id": "S000002624", "url": "https://www.yeastgenome.org/locus/S000002624" } ], "site_lbl": "Ser98" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1062", "end_pos": "1062" }, { "start_pos": "1245", "end_pos": "1245" }, { "start_pos": "1248", "end_pos": "1248" }, { "start_pos": "1250", "end_pos": "1250" }, { "start_pos": "1251", "end_pos": "1251" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "322", "end_pos": "322" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "upstream", "id": "P07248-1.106.106", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07248-1.109.109", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P07248-1.114.114", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07248-1.118.118", "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": "P07249-1.103.103", "start_pos": 103, "end_pos": 103, "uniprot_canonical_ac": "P07249-1", "length": 177, "uniprot_id": "ARGR1_YEAST", "protein_name": "Arginine metabolism regulation protein I", "refseq_ac": "NP_013756", "refseq_name": "Arg80p", "gene_name": "ARG80", "gene_names_uniprotkb": "ARG80; ARGR1; YM9532.07", "gene_names_refseq": "ARG80; ARGR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07249", "url": "https://www.uniprot.org/uniprotkb/P07249" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P07249", "url": "https://www.uniprot.org/uniprotkb/P07249", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "H", "start_aa": "H", "up_seq": "QPIRYIENKTRRHVTFSKRR", "down_seq": "GIMKKAYELSVLTGANILLL", "mutagenesis": [ { "sequence_org": "H", "sequence_mut": "R", "comment": "Abolishes the physical interaction with ARG82 and impairs function; when associated with G-94 and D-95.", "evidence": [ { "database": "UniProtKB", "id": "P07249", "url": "https://www.uniprot.org/uniprotkb/P07249" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "95", "end_pos": "95" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P07249-1.94.94", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07249-1.95.95", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07249-1.109.109", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P07249-1.115.115", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "P07249-1.109.109", "start_pos": 109, "end_pos": 109, "uniprot_canonical_ac": "P07249-1", "length": 177, "uniprot_id": "ARGR1_YEAST", "protein_name": "Arginine metabolism regulation protein I", "refseq_ac": "NP_013756", "refseq_name": "Arg80p", "gene_name": "ARG80", "gene_names_uniprotkb": "ARG80; ARGR1; YM9532.07", "gene_names_refseq": "ARG80; ARGR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07249", "url": "https://www.uniprot.org/uniprotkb/P07249" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Recruitment of the yeast MADS-box proteins, ArgRI and Mcm1 by the pleiotropic factor ArgRIII is required for their stability.", "journal": "Molecular microbiology", "date": "2000-01", "authors": "El Bakkoury M, Dubois E, Messenguy F", "evidence": [ { "database": "UniProtKB", "id": "P07249", "url": "https://www.uniprot.org/uniprotkb/P07249" } ], "reference": [ { "type": "PubMed", "id": "10632874", "url": "https://glygen.org/publication/PubMed/10632874" } ] } ], "crossref": [ { "id": "P07249", "url": "https://www.uniprot.org/uniprotkb/P07249", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "10632874", "url": "https://glygen.org/publication/PubMed/10632874", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "A", "start_aa": "A", "up_seq": "ENKTRRHVTFSKRRHGIMKK", "down_seq": "YELSVLTGANILLLILANSG", "mutagenesis": [ { "sequence_org": "A", "sequence_mut": "T", "comment": "Decreases the physical interaction with ARG82.", "evidence": [ { "database": "UniProtKB", "id": "P07249", "url": "https://www.uniprot.org/uniprotkb/P07249" }, { "database": "PubMed", "id": "10632874", "url": "https://glygen.org/publication/PubMed/10632874" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "95", "end_pos": "95" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P07249-1.94.94", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P07249-1.95.95", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07249-1.103.103", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07249-1.115.115", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07249-1.115.115", "start_pos": 115, "end_pos": 115, "uniprot_canonical_ac": "P07249-1", "length": 177, "uniprot_id": "ARGR1_YEAST", "protein_name": "Arginine metabolism regulation protein I", "refseq_ac": "NP_013756", "refseq_name": "Arg80p", "gene_name": "ARG80", "gene_names_uniprotkb": "ARG80; ARGR1; YM9532.07", "gene_names_refseq": "ARG80; ARGR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07249", "url": "https://www.uniprot.org/uniprotkb/P07249" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Recruitment of the yeast MADS-box proteins, ArgRI and Mcm1 by the pleiotropic factor ArgRIII is required for their stability.", "journal": "Molecular microbiology", "date": "2000-01", "authors": "El Bakkoury M, Dubois E, Messenguy F", "evidence": [ { "database": "UniProtKB", "id": "P07249", "url": "https://www.uniprot.org/uniprotkb/P07249" } ], "reference": [ { "type": "PubMed", "id": "10632874", "url": "https://glygen.org/publication/PubMed/10632874" } ] } ], "crossref": [ { "id": "P07249", "url": "https://www.uniprot.org/uniprotkb/P07249", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "10632874", "url": "https://glygen.org/publication/PubMed/10632874", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "L", "start_aa": "L", "up_seq": "HVTFSKRRHGIMKKAYELSV", "down_seq": "TGANILLLILANSGLVYTFT", "mutagenesis": [ { "sequence_org": "L", "sequence_mut": "H", "comment": "Decreases the physical interaction with ARG82.", "evidence": [ { "database": "UniProtKB", "id": "P07249", "url": "https://www.uniprot.org/uniprotkb/P07249" }, { "database": "PubMed", "id": "10632874", "url": "https://glygen.org/publication/PubMed/10632874" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "95", "end_pos": "95" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07249-1.95.95", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P07249-1.103.103", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07249-1.109.109", "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": "P07249-1.148.148", "start_pos": 148, "end_pos": 148, "uniprot_canonical_ac": "P07249-1", "length": 177, "uniprot_id": "ARGR1_YEAST", "protein_name": "Arginine metabolism regulation protein I", "refseq_ac": "NP_013756", "refseq_name": "Arg80p", "gene_name": "ARG80", "gene_names_uniprotkb": "ARG80; ARGR1; YM9532.07", "gene_names_refseq": "ARG80; ARGR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07249", "url": "https://www.uniprot.org/uniprotkb/P07249" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Recruitment of the yeast MADS-box proteins, ArgRI and Mcm1 by the pleiotropic factor ArgRIII is required for their stability.", "journal": "Molecular microbiology", "date": "2000-01", "authors": "El Bakkoury M, Dubois E, Messenguy F", "evidence": [ { "database": "UniProtKB", "id": "P07249", "url": "https://www.uniprot.org/uniprotkb/P07249" } ], "reference": [ { "type": "PubMed", "id": "10632874", "url": "https://glygen.org/publication/PubMed/10632874" } ] } ], "crossref": [ { "id": "P07249", "url": "https://www.uniprot.org/uniprotkb/P07249", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "10632874", "url": "https://glygen.org/publication/PubMed/10632874", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "G", "start_aa": "G", "up_seq": "SGLVYTFTTPKLEPVVREDE", "down_seq": "KSLIRACINASDTPDATDTS", "mutagenesis": [ { "sequence_org": "G", "sequence_mut": "D", "comment": "Decreases the physical interaction with ARG82.", "evidence": [ { "database": "UniProtKB", "id": "P07249", "url": "https://www.uniprot.org/uniprotkb/P07249" }, { "database": "PubMed", "id": "10632874", "url": "https://glygen.org/publication/PubMed/10632874" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "95", "end_pos": "95" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "upstream", "id": "P07249-1.161.161", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07249-1.168.168", "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": "P07249-1.94.94", "start_pos": 94, "end_pos": 94, "uniprot_canonical_ac": "P07249-1", "length": 177, "uniprot_id": "ARGR1_YEAST", "protein_name": "Arginine metabolism regulation protein I", "refseq_ac": "NP_013756", "refseq_name": "Arg80p", "gene_name": "ARG80", "gene_names_uniprotkb": "ARG80; ARGR1; YM9532.07", "gene_names_refseq": "ARG80; ARGR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07249", "url": "https://www.uniprot.org/uniprotkb/P07249" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Recruitment of the yeast MADS-box proteins, ArgRI and Mcm1 by the pleiotropic factor ArgRIII is required for their stability.", "journal": "Molecular microbiology", "date": "2000-01", "authors": "El Bakkoury M, Dubois E, Messenguy F", "evidence": [ { "database": "UniProtKB", "id": "P07249", "url": "https://www.uniprot.org/uniprotkb/P07249" } ], "reference": [ { "type": "PubMed", "id": "10632874", "url": "https://glygen.org/publication/PubMed/10632874" } ] } ], "crossref": [ { "id": "P07249", "url": "https://www.uniprot.org/uniprotkb/P07249", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "10632874", "url": "https://glygen.org/publication/PubMed/10632874", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "DTSTVTRRKQPIRYIENKTR", "down_seq": "HVTFSKRRHGIMKKAYELSV", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "G", "comment": "Decreases the physical interaction with ARG82. Abolishes the physical interaction with ARG82 and impairs function; when associated with D-95 and R-103.", "evidence": [ { "database": "UniProtKB", "id": "P07249", "url": "https://www.uniprot.org/uniprotkb/P07249" }, { "database": "PubMed", "id": "10632874", "url": "https://glygen.org/publication/PubMed/10632874" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "95", "end_pos": "95" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P07249-1.95.95", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07249-1.103.103", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07249-1.109.109", "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": "P07249-1.95.95", "start_pos": 95, "end_pos": 95, "uniprot_canonical_ac": "P07249-1", "length": 177, "uniprot_id": "ARGR1_YEAST", "protein_name": "Arginine metabolism regulation protein I", "refseq_ac": "NP_013756", "refseq_name": "Arg80p", "gene_name": "ARG80", "gene_names_uniprotkb": "ARG80; ARGR1; YM9532.07", "gene_names_refseq": "ARG80; ARGR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07249", "url": "https://www.uniprot.org/uniprotkb/P07249" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Recruitment of the yeast MADS-box proteins, ArgRI and Mcm1 by the pleiotropic factor ArgRIII is required for their stability.", "journal": "Molecular microbiology", "date": "2000-01", "authors": "El Bakkoury M, Dubois E, Messenguy F", "evidence": [ { "database": "UniProtKB", "id": "P07249", "url": "https://www.uniprot.org/uniprotkb/P07249" } ], "reference": [ { "type": "PubMed", "id": "10632874", "url": "https://glygen.org/publication/PubMed/10632874" } ] } ], "crossref": [ { "id": "P07249", "url": "https://www.uniprot.org/uniprotkb/P07249", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "10632874", "url": "https://glygen.org/publication/PubMed/10632874", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "H", "start_aa": "H", "up_seq": "TSTVTRRKQPIRYIENKTRR", "down_seq": "VTFSKRRHGIMKKAYELSVL", "mutagenesis": [ { "sequence_org": "H", "sequence_mut": "G", "comment": "Decreases the physical interaction with ARG82. Abolishes the physical interaction with ARG82 and impairs function; when associated with G-94 and R-103.", "evidence": [ { "database": "UniProtKB", "id": "P07249", "url": "https://www.uniprot.org/uniprotkb/P07249" }, { "database": "PubMed", "id": "10632874", "url": "https://glygen.org/publication/PubMed/10632874" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "95", "end_pos": "95" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P07249-1.94.94", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07249-1.103.103", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07249-1.109.109", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07249-1.115.115", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07249-1.11.11", "start_pos": 11, "end_pos": 11, "uniprot_canonical_ac": "P07249-1", "length": 177, "uniprot_id": "ARGR1_YEAST", "protein_name": "Arginine metabolism regulation protein I", "refseq_ac": "NP_013756", "refseq_name": "Arg80p", "gene_name": "ARG80", "gene_names_uniprotkb": "ARG80; ARGR1; YM9532.07", "gene_names_refseq": "ARG80; ARGR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07249", "url": "https://www.uniprot.org/uniprotkb/P07249" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07249", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07249" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000004645", "url": "https://www.yeastgenome.org/locus/S000004645", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07249", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07249", "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": "MTSNSDGSST", "down_seq": "PVEKPITGDVETNEPTKPIR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004645", "url": "https://www.yeastgenome.org/locus/S000004645" }, { "database": "iPTMnet", "id": "P07249", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07249" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser11" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "95", "end_pos": "95" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P07249-1.8.8", "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": "P07249-1.161.161", "start_pos": 161, "end_pos": 161, "uniprot_canonical_ac": "P07249-1", "length": 177, "uniprot_id": "ARGR1_YEAST", "protein_name": "Arginine metabolism regulation protein I", "refseq_ac": "NP_013756", "refseq_name": "Arg80p", "gene_name": "ARG80", "gene_names_uniprotkb": "ARG80; ARGR1; YM9532.07", "gene_names_refseq": "ARG80; ARGR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07249", "url": "https://www.uniprot.org/uniprotkb/P07249" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07249", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07249" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000004645", "url": "https://www.yeastgenome.org/locus/S000004645", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07249", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07249", "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": "PVVREDEGKSLIRACINASD", "down_seq": "PDATDTSPAQEQSPAN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004645", "url": "https://www.yeastgenome.org/locus/S000004645" }, { "database": "iPTMnet", "id": "P07249", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07249" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr161" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "95", "end_pos": "95" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P07249-1.148.148", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07249-1.168.168", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07249-1.174.174", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07249-1.168.168", "start_pos": 168, "end_pos": 168, "uniprot_canonical_ac": "P07249-1", "length": 177, "uniprot_id": "ARGR1_YEAST", "protein_name": "Arginine metabolism regulation protein I", "refseq_ac": "NP_013756", "refseq_name": "Arg80p", "gene_name": "ARG80", "gene_names_uniprotkb": "ARG80; ARGR1; YM9532.07", "gene_names_refseq": "ARG80; ARGR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07249", "url": "https://www.uniprot.org/uniprotkb/P07249" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07249", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07249" } ], "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": "P07249", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07249" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004645", "url": "https://www.yeastgenome.org/locus/S000004645", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07249", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07249", "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": "GKSLIRACINASDTPDATDT", "down_seq": "PAQEQSPAN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004645", "url": "https://www.yeastgenome.org/locus/S000004645" }, { "database": "iPTMnet", "id": "P07249", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07249" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser168" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "95", "end_pos": "95" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07249-1.148.148", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P07249-1.161.161", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07249-1.174.174", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07249-1.174.174", "start_pos": 174, "end_pos": 174, "uniprot_canonical_ac": "P07249-1", "length": 177, "uniprot_id": "ARGR1_YEAST", "protein_name": "Arginine metabolism regulation protein I", "refseq_ac": "NP_013756", "refseq_name": "Arg80p", "gene_name": "ARG80", "gene_names_uniprotkb": "ARG80; ARGR1; YM9532.07", "gene_names_refseq": "ARG80; ARGR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07249", "url": "https://www.uniprot.org/uniprotkb/P07249" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07249", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07249" } ], "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": "P07249", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07249" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07249", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07249" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004645", "url": "https://www.yeastgenome.org/locus/S000004645", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07249", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07249", "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": "ACINASDTPDATDTSPAQEQ", "down_seq": "PAN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004645", "url": "https://www.yeastgenome.org/locus/S000004645" }, { "database": "iPTMnet", "id": "P07249", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07249" }, { "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": "Ser174" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "95", "end_pos": "95" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P07249-1.161.161", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07249-1.168.168", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07249-1.73.73", "start_pos": 73, "end_pos": 73, "uniprot_canonical_ac": "P07249-1", "length": 177, "uniprot_id": "ARGR1_YEAST", "protein_name": "Arginine metabolism regulation protein I", "refseq_ac": "NP_013756", "refseq_name": "Arg80p", "gene_name": "ARG80", "gene_names_uniprotkb": "ARG80; ARGR1; YM9532.07", "gene_names_refseq": "ARG80; ARGR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07249", "url": "https://www.uniprot.org/uniprotkb/P07249" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07249", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07249" } ], "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": "P07249", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07249" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004645", "url": "https://www.yeastgenome.org/locus/S000004645", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07249", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07249", "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": "DKFSVSTSTPTPTITKTKDS", "down_seq": "DTSTVTRRKQPIRYIENKTR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004645", "url": "https://www.yeastgenome.org/locus/S000004645" }, { "database": "iPTMnet", "id": "P07249", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07249" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser73" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "95", "end_pos": "95" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07249-1.8.8", "start_pos": 8, "end_pos": 8, "uniprot_canonical_ac": "P07249-1", "length": 177, "uniprot_id": "ARGR1_YEAST", "protein_name": "Arginine metabolism regulation protein I", "refseq_ac": "NP_013756", "refseq_name": "Arg80p", "gene_name": "ARG80", "gene_names_uniprotkb": "ARG80; ARGR1; YM9532.07", "gene_names_refseq": "ARG80; ARGR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07249", "url": "https://www.uniprot.org/uniprotkb/P07249" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07249", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07249" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000004645", "url": "https://www.yeastgenome.org/locus/S000004645", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07249", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07249", "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": "MTSNSDG", "down_seq": "STSPVEKPITGDVETNEPTK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004645", "url": "https://www.yeastgenome.org/locus/S000004645" }, { "database": "iPTMnet", "id": "P07249", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07249" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser8" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "95", "end_pos": "95" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P07249-1.11.11", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07250-1.131.131", "start_pos": 131, "end_pos": 131, "uniprot_canonical_ac": "P07250-1", "length": 355, "uniprot_id": "IPMK_YEAST", "protein_name": "Inositol polyphosphate multikinase", "refseq_ac": "NP_010458", "refseq_name": "inositol polyphosphate multikinase", "gene_name": "ARG82", "gene_names_uniprotkb": "ARG82; ARGR3; GSL3; IPK2; YD9395.06C", "gene_names_refseq": "ARG82; ARGR3; IPK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07250", "url": "https://www.uniprot.org/uniprotkb/P07250" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "[PSI+] prion propagation is controlled by inositol polyphosphates.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2017-10-03", "authors": "Wickner Reed B, Kelly Amy C, Bezsonov Evgeny E, Edskes Herman K", "evidence": [ { "database": "UniProtKB", "id": "P07250", "url": "https://www.uniprot.org/uniprotkb/P07250" } ], "reference": [ { "type": "PubMed", "id": "28923943", "url": "https://glygen.org/publication/PubMed/28923943" } ] }, { "title": "Arg82p is a bifunctional protein whose inositol polyphosphate kinase activity is essential for nitrogen and PHO gene expression but not for Mcm1p chaperoning in yeast.", "journal": "Molecular microbiology", "date": "2003", "authors": "El Alami M, Messenguy F, Scherens B, Dubois E", "evidence": [ { "database": "UniProtKB", "id": "P07250", "url": "https://www.uniprot.org/uniprotkb/P07250" } ], "reference": [ { "type": "PubMed", "id": "12828642", "url": "https://glygen.org/publication/PubMed/12828642" } ] } ], "crossref": [ { "id": "P07250", "url": "https://www.uniprot.org/uniprotkb/P07250", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "28923943", "url": "https://glygen.org/publication/PubMed/28923943", "database": "PubMed", "categories": [ "Other" ] }, { "id": "12828642", "url": "https://glygen.org/publication/PubMed/12828642", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "SKQYLVLENLLYGFSKPNIL", "down_seq": "IKLGKTLYDSKASLEKRERM", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "Abolishes catalytic activity, but preserves its nonkinase transcription regulation functions.", "evidence": [ { "database": "UniProtKB", "id": "P07250", "url": "https://www.uniprot.org/uniprotkb/P07250" }, { "database": "PubMed", "id": "28923943", "url": "https://glygen.org/publication/PubMed/28923943" }, { "database": "PubMed", "id": "12828642", "url": "https://glygen.org/publication/PubMed/12828642" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "257", "end_pos": "260" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "177", "end_pos": "177" }, { "start_pos": "314", "end_pos": "314" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "97", "end_pos": "97" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P07250-1.133.133", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07250-1.133.133", "start_pos": 133, "end_pos": 133, "uniprot_canonical_ac": "P07250-1", "length": 355, "uniprot_id": "IPMK_YEAST", "protein_name": "Inositol polyphosphate multikinase", "refseq_ac": "NP_010458", "refseq_name": "inositol polyphosphate multikinase", "gene_name": "ARG82", "gene_names_uniprotkb": "ARG82; ARGR3; GSL3; IPK2; YD9395.06C", "gene_names_refseq": "ARG82; ARGR3; IPK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07250", "url": "https://www.uniprot.org/uniprotkb/P07250" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Inositol polyphosphate multikinase is a nuclear PI3-kinase with transcriptional regulatory activity.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2005-09-06", "authors": "Resnick Adam C, Snowman Adele M, Kang Bingnan N, Hurt K Joseph, Snyder Solomon H, Saiardi Adolfo", "evidence": [ { "database": "UniProtKB", "id": "P07250", "url": "https://www.uniprot.org/uniprotkb/P07250" } ], "reference": [ { "type": "PubMed", "id": "16123124", "url": "https://glygen.org/publication/PubMed/16123124" } ] }, { "title": "[PSI+] prion propagation is controlled by inositol polyphosphates.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2017-10-03", "authors": "Wickner Reed B, Kelly Amy C, Bezsonov Evgeny E, Edskes Herman K", "evidence": [ { "database": "UniProtKB", "id": "P07250", "url": "https://www.uniprot.org/uniprotkb/P07250" } ], "reference": [ { "type": "PubMed", "id": "28923943", "url": "https://glygen.org/publication/PubMed/28923943" } ] } ], "crossref": [ { "id": "P07250", "url": "https://www.uniprot.org/uniprotkb/P07250", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16123124", "url": "https://glygen.org/publication/PubMed/16123124", "database": "PubMed", "categories": [ "Other" ] }, { "id": "28923943", "url": "https://glygen.org/publication/PubMed/28923943", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "QYLVLENLLYGFSKPNILDI", "down_seq": "LGKTLYDSKASLEKRERMKR", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "Abolishes catalytic activity, but preserves its nonkinase transcription regulation functions.", "evidence": [ { "database": "UniProtKB", "id": "P07250", "url": "https://www.uniprot.org/uniprotkb/P07250" }, { "database": "PubMed", "id": "16123124", "url": "https://glygen.org/publication/PubMed/16123124" }, { "database": "PubMed", "id": "28923943", "url": "https://glygen.org/publication/PubMed/28923943" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "257", "end_pos": "260" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "177", "end_pos": "177" }, { "start_pos": "314", "end_pos": "314" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "97", "end_pos": "97" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07250-1.131.131", "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": "P07250-1.257.260", "start_pos": 257, "end_pos": 260, "uniprot_canonical_ac": "P07250-1", "length": 355, "uniprot_id": "IPMK_YEAST", "protein_name": "Inositol polyphosphate multikinase", "refseq_ac": "NP_010458", "refseq_name": "inositol polyphosphate multikinase", "gene_name": "ARG82", "gene_names_uniprotkb": "ARG82; ARGR3; GSL3; IPK2; YD9395.06C", "gene_names_refseq": "ARG82; ARGR3; IPK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07250", "url": "https://www.uniprot.org/uniprotkb/P07250" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Arg82p is a bifunctional protein whose inositol polyphosphate kinase activity is essential for nitrogen and PHO gene expression but not for Mcm1p chaperoning in yeast.", "journal": "Molecular microbiology", "date": "2003", "authors": "El Alami M, Messenguy F, Scherens B, Dubois E", "evidence": [ { "database": "UniProtKB", "id": "P07250", "url": "https://www.uniprot.org/uniprotkb/P07250" } ], "reference": [ { "type": "PubMed", "id": "12828642", "url": "https://glygen.org/publication/PubMed/12828642" } ] } ], "crossref": [ { "id": "P07250", "url": "https://www.uniprot.org/uniprotkb/P07250", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "12828642", "url": "https://glygen.org/publication/PubMed/12828642", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "SSLL", "start_aa": "S", "up_seq": "LKRLQLFYNTMLEEEVRMIS", "down_seq": "FIYEGDPERWELLNDVDKLM", "mutagenesis": [ { "sequence_org": "SSLL", "sequence_mut": "AAAA", "comment": "Abolishes catalytic activity.", "evidence": [ { "database": "UniProtKB", "id": "P07250", "url": "https://www.uniprot.org/uniprotkb/P07250" }, { "database": "PubMed", "id": "12828642", "url": "https://glygen.org/publication/PubMed/12828642" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "257", "end_pos": "260" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "177", "end_pos": "177" }, { "start_pos": "314", "end_pos": "314" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "97", "end_pos": "97" }, { "start_pos": "98", "end_pos": "98" } ] } ], "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": "P07250-1.177.177", "start_pos": 177, "end_pos": 177, "uniprot_canonical_ac": "P07250-1", "length": 355, "uniprot_id": "IPMK_YEAST", "protein_name": "Inositol polyphosphate multikinase", "refseq_ac": "NP_010458", "refseq_name": "inositol polyphosphate multikinase", "gene_name": "ARG82", "gene_names_uniprotkb": "ARG82; ARGR3; GSL3; IPK2; YD9395.06C", "gene_names_refseq": "ARG82; ARGR3; IPK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07250", "url": "https://www.uniprot.org/uniprotkb/P07250" } ], "common_name": "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": "P07250", "url": "https://www.uniprot.org/uniprotkb/P07250" }, { "database": "iPTMnet", "id": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002580", "url": "https://www.yeastgenome.org/locus/S000002580", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TTTSGSLGFRICGMKIQKNP", "down_seq": "VLNQLSLEYYEEEADSDYIF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000002580", "url": "https://www.yeastgenome.org/locus/S000002580" } ], "site_lbl": "Ser177" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "257", "end_pos": "260" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "177", "end_pos": "177" }, { "start_pos": "314", "end_pos": "314" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "97", "end_pos": "97" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07250-1.314.314", "start_pos": 314, "end_pos": 314, "uniprot_canonical_ac": "P07250-1", "length": 355, "uniprot_id": "IPMK_YEAST", "protein_name": "Inositol polyphosphate multikinase", "refseq_ac": "NP_010458", "refseq_name": "inositol polyphosphate multikinase", "gene_name": "ARG82", "gene_names_uniprotkb": "ARG82; ARGR3; GSL3; IPK2; YD9395.06C", "gene_names_refseq": "ARG82; ARGR3; IPK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07250", "url": "https://www.uniprot.org/uniprotkb/P07250" } ], "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": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250", "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": "NDDDDDDDAEGSSEGPKDKK", "down_seq": "TGSLSSMSLIDFAHSEITPG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Thr314" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "257", "end_pos": "260" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "177", "end_pos": "177" }, { "start_pos": "314", "end_pos": "314" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "97", "end_pos": "97" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P07250-1.315.315", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07250-1.315.315", "start_pos": 315, "end_pos": 315, "uniprot_canonical_ac": "P07250-1", "length": 355, "uniprot_id": "IPMK_YEAST", "protein_name": "Inositol polyphosphate multikinase", "refseq_ac": "NP_010458", "refseq_name": "inositol polyphosphate multikinase", "gene_name": "ARG82", "gene_names_uniprotkb": "ARG82; ARGR3; GSL3; IPK2; YD9395.06C", "gene_names_refseq": "ARG82; ARGR3; IPK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07250", "url": "https://www.uniprot.org/uniprotkb/P07250" } ], "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": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250", "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": "DDDDDDDAEGSSEGPKDKKT", "down_seq": "GSLSSMSLIDFAHSEITPGK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Thr315" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "257", "end_pos": "260" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "177", "end_pos": "177" }, { "start_pos": "314", "end_pos": "314" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "97", "end_pos": "97" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P07250-1.314.314", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07250-1.95.95", "start_pos": 95, "end_pos": 95, "uniprot_canonical_ac": "P07250-1", "length": 355, "uniprot_id": "IPMK_YEAST", "protein_name": "Inositol polyphosphate multikinase", "refseq_ac": "NP_010458", "refseq_name": "inositol polyphosphate multikinase", "gene_name": "ARG82", "gene_names_uniprotkb": "ARG82; ARGR3; GSL3; IPK2; YD9395.06C", "gene_names_refseq": "ARG82; ARGR3; IPK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07250", "url": "https://www.uniprot.org/uniprotkb/P07250" } ], "common_name": "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": "P07250", "url": "https://www.uniprot.org/uniprotkb/P07250" }, { "database": "iPTMnet", "id": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250" } ], "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": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250" } ], "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": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250" } ], "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": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250", "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": "S000002580", "url": "https://www.yeastgenome.org/locus/S000002580", "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": "EGAKIEQSGDAALLKIDERL", "down_seq": "DSTDNLDSIPVKSEKSKQYL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250" }, { "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": "S000002580", "url": "https://www.yeastgenome.org/locus/S000002580" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser95" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "257", "end_pos": "260" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "177", "end_pos": "177" }, { "start_pos": "314", "end_pos": "314" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "97", "end_pos": "97" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P07250-1.97.97", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07250-1.98.98", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07250-1.97.97", "start_pos": 97, "end_pos": 97, "uniprot_canonical_ac": "P07250-1", "length": 355, "uniprot_id": "IPMK_YEAST", "protein_name": "Inositol polyphosphate multikinase", "refseq_ac": "NP_010458", "refseq_name": "inositol polyphosphate multikinase", "gene_name": "ARG82", "gene_names_uniprotkb": "ARG82; ARGR3; GSL3; IPK2; YD9395.06C", "gene_names_refseq": "ARG82; ARGR3; IPK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07250", "url": "https://www.uniprot.org/uniprotkb/P07250" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07250", "url": "https://www.uniprot.org/uniprotkb/P07250" }, { "database": "iPTMnet", "id": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250" } ], "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": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250" } ], "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": "P07250", "url": "https://www.uniprot.org/uniprotkb/P07250" }, { "database": "iPTMnet", "id": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250" } ], "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": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250" } ], "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": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250" } ], "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": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250" } ], "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": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250" } ], "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": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250" } ], "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": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07250", "url": "https://www.uniprot.org/uniprotkb/P07250", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002580", "url": "https://www.yeastgenome.org/locus/S000002580", "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": "AKIEQSGDAALLKIDERLSD", "down_seq": "TDNLDSIPVKSEKSKQYLVL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07250", "url": "https://www.uniprot.org/uniprotkb/P07250" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000002580", "url": "https://www.yeastgenome.org/locus/S000002580" }, { "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": "Ser97" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "257", "end_pos": "260" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "177", "end_pos": "177" }, { "start_pos": "314", "end_pos": "314" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "97", "end_pos": "97" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07250-1.95.95", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07250-1.98.98", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 10 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07250-1.98.98", "start_pos": 98, "end_pos": 98, "uniprot_canonical_ac": "P07250-1", "length": 355, "uniprot_id": "IPMK_YEAST", "protein_name": "Inositol polyphosphate multikinase", "refseq_ac": "NP_010458", "refseq_name": "inositol polyphosphate multikinase", "gene_name": "ARG82", "gene_names_uniprotkb": "ARG82; ARGR3; GSL3; IPK2; YD9395.06C", "gene_names_refseq": "ARG82; ARGR3; IPK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07250", "url": "https://www.uniprot.org/uniprotkb/P07250" } ], "common_name": "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": "P07250", "url": "https://www.uniprot.org/uniprotkb/P07250" }, { "database": "iPTMnet", "id": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250" } ], "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": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250" } ], "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": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250" } ], "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": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250" } ], "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": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002580", "url": "https://www.yeastgenome.org/locus/S000002580", "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": "KIEQSGDAALLKIDERLSDS", "down_seq": "DNLDSIPVKSEKSKQYLVLE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07250" }, { "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": "S000002580", "url": "https://www.yeastgenome.org/locus/S000002580" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr98" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "257", "end_pos": "260" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "177", "end_pos": "177" }, { "start_pos": "314", "end_pos": "314" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "97", "end_pos": "97" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P07250-1.95.95", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07250-1.97.97", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07251-1.291.291", "start_pos": 291, "end_pos": 291, "uniprot_canonical_ac": "P07251-1", "length": 545, "uniprot_id": "ATPA_YEAST", "protein_name": "ATP synthase subunit alpha, mitochondrial", "refseq_ac": "NP_009453", "refseq_name": "F1F0 ATP synthase subunit alpha", "gene_name": "ATP1", "gene_names_uniprotkb": "ATP1; YBL0827", "gene_names_refseq": "ATP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07251", "url": "https://www.uniprot.org/uniprotkb/P07251" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "ASC1/RAS2 suppresses the growth defect on glycerol caused by the atp1-2 mutation in the yeast Saccharomyces cerevisiae.", "journal": "The Journal of biological chemistry", "date": "2000-04-07", "authors": "Mabuchi T, Ichimura Y, Takeda M, Douglas M G", "evidence": [ { "database": "UniProtKB", "id": "P07251", "url": "https://www.uniprot.org/uniprotkb/P07251" } ], "reference": [ { "type": "PubMed", "id": "10744740", "url": "https://glygen.org/publication/PubMed/10744740" } ] } ], "crossref": [ { "id": "P07251", "url": "https://www.uniprot.org/uniprotkb/P07251", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "10744740", "url": "https://glygen.org/publication/PubMed/10744740", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "G", "start_aa": "G", "up_seq": "ATASEAAPLQYLAPFTAASI", "down_seq": "EWFRDNGKHALIVYDDLSKQ", "mutagenesis": [ { "sequence_org": "G", "sequence_mut": "D", "comment": "In ATP1-2; growth-defect.", "evidence": [ { "database": "UniProtKB", "id": "P07251", "url": "https://www.uniprot.org/uniprotkb/P07251" }, { "database": "PubMed", "id": "10744740", "url": "https://glygen.org/publication/PubMed/10744740" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "291", "end_pos": "291" }, { "start_pos": "383", "end_pos": "383" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "128", "end_pos": "128" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "57", "end_pos": "57" } ] } ], "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": "P07251-1.383.383", "start_pos": 383, "end_pos": 383, "uniprot_canonical_ac": "P07251-1", "length": 545, "uniprot_id": "ATPA_YEAST", "protein_name": "ATP synthase subunit alpha, mitochondrial", "refseq_ac": "NP_009453", "refseq_name": "F1F0 ATP synthase subunit alpha", "gene_name": "ATP1", "gene_names_uniprotkb": "ATP1; YBL0827", "gene_names_refseq": "ATP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07251", "url": "https://www.uniprot.org/uniprotkb/P07251" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "ASC1/RAS2 suppresses the growth defect on glycerol caused by the atp1-2 mutation in the yeast Saccharomyces cerevisiae.", "journal": "The Journal of biological chemistry", "date": "2000-04-07", "authors": "Mabuchi T, Ichimura Y, Takeda M, Douglas M G", "evidence": [ { "database": "UniProtKB", "id": "P07251", "url": "https://www.uniprot.org/uniprotkb/P07251" } ], "reference": [ { "type": "PubMed", "id": "10744740", "url": "https://glygen.org/publication/PubMed/10744740" } ] } ], "crossref": [ { "id": "P07251", "url": "https://www.uniprot.org/uniprotkb/P07251", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "10744740", "url": "https://glygen.org/publication/PubMed/10744740", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "VIETQGGDVSAYIPTNVISI", "down_seq": "DGQIFLEAELFYKGIRPAIN", "mutagenesis": [ { "sequence_org": "T", "sequence_mut": "I", "comment": "In ATP1-1; growth-defect.", "evidence": [ { "database": "UniProtKB", "id": "P07251", "url": "https://www.uniprot.org/uniprotkb/P07251" }, { "database": "PubMed", "id": "10744740", "url": "https://glygen.org/publication/PubMed/10744740" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "291", "end_pos": "291" }, { "start_pos": "383", "end_pos": "383" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "128", "end_pos": "128" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "57", "end_pos": "57" } ] } ], "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": "P07251-1.128.128", "start_pos": 128, "end_pos": 128, "uniprot_canonical_ac": "P07251-1", "length": 545, "uniprot_id": "ATPA_YEAST", "protein_name": "ATP synthase subunit alpha, mitochondrial", "refseq_ac": "NP_009453", "refseq_name": "F1F0 ATP synthase subunit alpha", "gene_name": "ATP1", "gene_names_uniprotkb": "ATP1; YBL0827", "gene_names_refseq": "ATP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07251", "url": "https://www.uniprot.org/uniprotkb/P07251" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000195", "url": "https://www.yeastgenome.org/locus/S000000195", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251", "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": "VGIVLFGSDRLVKEGELVKR", "down_seq": "GNIVDVPVGPGLLGRVVDAL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000195", "url": "https://www.yeastgenome.org/locus/S000000195" }, { "database": "iPTMnet", "id": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr128" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "291", "end_pos": "291" }, { "start_pos": "383", "end_pos": "383" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "128", "end_pos": "128" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "57", "end_pos": "57" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07251-1.178.178", "start_pos": 178, "end_pos": 178, "uniprot_canonical_ac": "P07251-1", "length": 545, "uniprot_id": "ATPA_YEAST", "protein_name": "ATP synthase subunit alpha, mitochondrial", "refseq_ac": "NP_009453", "refseq_name": "F1F0 ATP synthase subunit alpha", "gene_name": "ATP1", "gene_names_uniprotkb": "ATP1; YBL0827", "gene_names_refseq": "ATP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07251", "url": "https://www.uniprot.org/uniprotkb/P07251" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Profiling phosphoproteins of yeast mitochondria reveals a role of phosphorylation in assembly of the ATP synthase.", "journal": "Molecular & cellular proteomics : MCP", "date": "2007-11", "authors": "Reinders J\u00f6rg, Wagner Karina, Zahedi Rene P, Stojanovski Diana, Eyrich Beate, van der Laan Martin, Rehling Peter, Sickmann Albert, Pfanner Nikolaus, Meisinger Chris", "evidence": [ { "database": "UniProtKB", "id": "P07251", "url": "https://www.uniprot.org/uniprotkb/P07251" }, { "database": "iPTMnet", "id": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251" } ], "reference": [ { "type": "PubMed", "id": "17761666", "url": "https://glygen.org/publication/PubMed/17761666" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "iPTMnet", "id": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251" } ], "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": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251" } ], "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": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07251", "url": "https://www.uniprot.org/uniprotkb/P07251", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17761666", "url": "https://glygen.org/publication/PubMed/17761666", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000195", "url": "https://www.yeastgenome.org/locus/S000000195", "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": "IDAAGRSRAQVKAPGILPRR", "down_seq": "VHEPVQTGLKAVDALVPIGR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07251", "url": "https://www.uniprot.org/uniprotkb/P07251" }, { "database": "PubMed", "id": "17761666", "url": "https://glygen.org/publication/PubMed/17761666" }, { "database": "iPTMnet", "id": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000195", "url": "https://www.yeastgenome.org/locus/S000000195" }, { "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": "Ser178" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "291", "end_pos": "291" }, { "start_pos": "383", "end_pos": "383" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "128", "end_pos": "128" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "57", "end_pos": "57" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07251-1.213.213", "start_pos": 213, "end_pos": 213, "uniprot_canonical_ac": "P07251-1", "length": 545, "uniprot_id": "ATPA_YEAST", "protein_name": "ATP synthase subunit alpha, mitochondrial", "refseq_ac": "NP_009453", "refseq_name": "F1F0 ATP synthase subunit alpha", "gene_name": "ATP1", "gene_names_uniprotkb": "ATP1; YBL0827", "gene_names_refseq": "ATP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07251", "url": "https://www.uniprot.org/uniprotkb/P07251" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000195", "url": "https://www.yeastgenome.org/locus/S000000195", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251", "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": "LVPIGRGQRELIIGDRQTGK", "down_seq": "AVALDTILNQKRWNNGSDES", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000195", "url": "https://www.yeastgenome.org/locus/S000000195" }, { "database": "iPTMnet", "id": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr213" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "291", "end_pos": "291" }, { "start_pos": "383", "end_pos": "383" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "128", "end_pos": "128" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "57", "end_pos": "57" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07251-1.350.350", "start_pos": 350, "end_pos": 350, "uniprot_canonical_ac": "P07251-1", "length": 545, "uniprot_id": "ATPA_YEAST", "protein_name": "ATP synthase subunit alpha, mitochondrial", "refseq_ac": "NP_009453", "refseq_name": "F1F0 ATP synthase subunit alpha", "gene_name": "ATP1", "gene_names_uniprotkb": "ATP1; YBL0827", "gene_names_refseq": "ATP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07251", "url": "https://www.uniprot.org/uniprotkb/P07251" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000195", "url": "https://www.yeastgenome.org/locus/S000000195", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AYPGDVFYLHSRLLERAAKL", "down_seq": "EKEGSGSLTALPVIETQGGD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000195", "url": "https://www.yeastgenome.org/locus/S000000195" }, { "database": "iPTMnet", "id": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser350" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "291", "end_pos": "291" }, { "start_pos": "383", "end_pos": "383" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "128", "end_pos": "128" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "57", "end_pos": "57" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07251-1.413.413", "start_pos": 413, "end_pos": 413, "uniprot_canonical_ac": "P07251-1", "length": 545, "uniprot_id": "ATPA_YEAST", "protein_name": "ATP synthase subunit alpha, mitochondrial", "refseq_ac": "NP_009453", "refseq_name": "F1F0 ATP synthase subunit alpha", "gene_name": "ATP1", "gene_names_uniprotkb": "ATP1; YBL0827", "gene_names_refseq": "ATP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07251", "url": "https://www.uniprot.org/uniprotkb/P07251" } ], "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": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251" } ], "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": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000195", "url": "https://www.yeastgenome.org/locus/S000000195", "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": "LFYKGIRPAINVGLSVSRVG", "down_seq": "AAQVKALKQVAGSLKLFLAQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000000195", "url": "https://www.yeastgenome.org/locus/S000000195" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser413" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "291", "end_pos": "291" }, { "start_pos": "383", "end_pos": "383" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "128", "end_pos": "128" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "57", "end_pos": "57" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07251-1.43.43", "start_pos": 43, "end_pos": 43, "uniprot_canonical_ac": "P07251-1", "length": 545, "uniprot_id": "ATPA_YEAST", "protein_name": "ATP synthase subunit alpha, mitochondrial", "refseq_ac": "NP_009453", "refseq_name": "F1F0 ATP synthase subunit alpha", "gene_name": "ATP1", "gene_names_uniprotkb": "ATP1; YBL0827", "gene_names_refseq": "ATP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07251", "url": "https://www.uniprot.org/uniprotkb/P07251" } ], "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": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251", "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": "RPAAAALASTRRLASTKAQP", "down_seq": "EVSSILEERIKGVSDEANLN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Thr43" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "291", "end_pos": "291" }, { "start_pos": "383", "end_pos": "383" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "128", "end_pos": "128" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "57", "end_pos": "57" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P07251-1.47.47", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07251-1.57.57", "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": "P07251-1.47.47", "start_pos": 47, "end_pos": 47, "uniprot_canonical_ac": "P07251-1", "length": 545, "uniprot_id": "ATPA_YEAST", "protein_name": "ATP synthase subunit alpha, mitochondrial", "refseq_ac": "NP_009453", "refseq_name": "F1F0 ATP synthase subunit alpha", "gene_name": "ATP1", "gene_names_uniprotkb": "ATP1; YBL0827", "gene_names_refseq": "ATP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07251", "url": "https://www.uniprot.org/uniprotkb/P07251" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000195", "url": "https://www.yeastgenome.org/locus/S000000195", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251", "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": "AALASTRRLASTKAQPTEVS", "down_seq": "ILEERIKGVSDEANLNETGR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000195", "url": "https://www.yeastgenome.org/locus/S000000195" }, { "database": "iPTMnet", "id": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser47" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "291", "end_pos": "291" }, { "start_pos": "383", "end_pos": "383" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "128", "end_pos": "128" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "57", "end_pos": "57" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P07251-1.43.43", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07251-1.57.57", "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": "P07251-1.507.507", "start_pos": 507, "end_pos": 507, "uniprot_canonical_ac": "P07251-1", "length": 545, "uniprot_id": "ATPA_YEAST", "protein_name": "ATP synthase subunit alpha, mitochondrial", "refseq_ac": "NP_009453", "refseq_name": "F1F0 ATP synthase subunit alpha", "gene_name": "ATP1", "gene_names_uniprotkb": "ATP1; YBL0827", "gene_names_refseq": "ATP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07251", "url": "https://www.uniprot.org/uniprotkb/P07251" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000195", "url": "https://www.yeastgenome.org/locus/S000000195", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251", "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": "NGHLDGIELSRIGEFESSFL", "down_seq": "YLKSNHNELLTEIREKGELS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000195", "url": "https://www.yeastgenome.org/locus/S000000195" }, { "database": "iPTMnet", "id": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser507" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "291", "end_pos": "291" }, { "start_pos": "383", "end_pos": "383" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "128", "end_pos": "128" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "57", "end_pos": "57" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P07251-1.511.511", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07251-1.511.511", "start_pos": 511, "end_pos": 511, "uniprot_canonical_ac": "P07251-1", "length": 545, "uniprot_id": "ATPA_YEAST", "protein_name": "ATP synthase subunit alpha, mitochondrial", "refseq_ac": "NP_009453", "refseq_name": "F1F0 ATP synthase subunit alpha", "gene_name": "ATP1", "gene_names_uniprotkb": "ATP1; YBL0827", "gene_names_refseq": "ATP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07251", "url": "https://www.uniprot.org/uniprotkb/P07251" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "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": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251" } ], "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": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000195", "url": "https://www.yeastgenome.org/locus/S000000195", "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": "DGIELSRIGEFESSFLSYLK", "down_seq": "NHNELLTEIREKGELSKELL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000195", "url": "https://www.yeastgenome.org/locus/S000000195" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser511" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "291", "end_pos": "291" }, { "start_pos": "383", "end_pos": "383" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "128", "end_pos": "128" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "57", "end_pos": "57" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P07251-1.507.507", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07251-1.57.57", "start_pos": 57, "end_pos": 57, "uniprot_canonical_ac": "P07251-1", "length": 545, "uniprot_id": "ATPA_YEAST", "protein_name": "ATP synthase subunit alpha, mitochondrial", "refseq_ac": "NP_009453", "refseq_name": "F1F0 ATP synthase subunit alpha", "gene_name": "ATP1", "gene_names_uniprotkb": "ATP1; YBL0827", "gene_names_refseq": "ATP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07251", "url": "https://www.uniprot.org/uniprotkb/P07251" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Profiling phosphoproteins of yeast mitochondria reveals a role of phosphorylation in assembly of the ATP synthase.", "journal": "Molecular & cellular proteomics : MCP", "date": "2007-11", "authors": "Reinders J\u00f6rg, Wagner Karina, Zahedi Rene P, Stojanovski Diana, Eyrich Beate, van der Laan Martin, Rehling Peter, Sickmann Albert, Pfanner Nikolaus, Meisinger Chris", "evidence": [ { "database": "UniProtKB", "id": "P07251", "url": "https://www.uniprot.org/uniprotkb/P07251" }, { "database": "iPTMnet", "id": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251" } ], "reference": [ { "type": "PubMed", "id": "17761666", "url": "https://glygen.org/publication/PubMed/17761666" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251" } ], "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": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07251", "url": "https://www.uniprot.org/uniprotkb/P07251", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17761666", "url": "https://glygen.org/publication/PubMed/17761666", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000000195", "url": "https://www.yeastgenome.org/locus/S000000195", "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": "STKAQPTEVSSILEERIKGV", "down_seq": "DEANLNETGRVLAVGDGIAR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07251", "url": "https://www.uniprot.org/uniprotkb/P07251" }, { "database": "PubMed", "id": "17761666", "url": "https://glygen.org/publication/PubMed/17761666" }, { "database": "iPTMnet", "id": "P07251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07251" }, { "database": "SGD", "id": "S000000195", "url": "https://www.yeastgenome.org/locus/S000000195" }, { "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": "Ser57" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "291", "end_pos": "291" }, { "start_pos": "383", "end_pos": "383" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "128", "end_pos": "128" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "57", "end_pos": "57" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P07251-1.43.43", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P07251-1.47.47", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07256-1.116.116", "start_pos": 116, "end_pos": 116, "uniprot_canonical_ac": "P07256-1", "length": 457, "uniprot_id": "QCR1_YEAST", "protein_name": "Cytochrome b-c1 complex subunit 1, mitochondrial", "refseq_ac": "NP_009508", "refseq_name": "ubiquinol--cytochrome-c reductase subunit COR1", "gene_name": "COR1", "gene_names_uniprotkb": "COR1; QCR1; YBL0403", "gene_names_refseq": "COR1; QCR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07256", "url": "https://www.uniprot.org/uniprotkb/P07256" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07256", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07256" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000141", "url": "https://www.yeastgenome.org/locus/S000000141", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07256", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07256", "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": "NISRDFQSYIVSSLPGSTDK", "down_seq": "LDFLNQSFIQQKANLLSSSN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000141", "url": "https://www.yeastgenome.org/locus/S000000141" }, { "database": "iPTMnet", "id": "P07256", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07256" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser116" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "upstream", "id": "P07256-1.133.133", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P07256-1.135.135", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07256-1.133.133", "start_pos": 133, "end_pos": 133, "uniprot_canonical_ac": "P07256-1", "length": 457, "uniprot_id": "QCR1_YEAST", "protein_name": "Cytochrome b-c1 complex subunit 1, mitochondrial", "refseq_ac": "NP_009508", "refseq_name": "ubiquinol--cytochrome-c reductase subunit COR1", "gene_name": "COR1", "gene_names_uniprotkb": "COR1; QCR1; YBL0403", "gene_names_refseq": "COR1; QCR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07256", "url": "https://www.uniprot.org/uniprotkb/P07256" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07256", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07256" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000141", "url": "https://www.yeastgenome.org/locus/S000000141", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07256", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07256", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TDKSLDFLNQSFIQQKANLL", "down_seq": "SSNFEATKKSVLKQVQDFEE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000141", "url": "https://www.yeastgenome.org/locus/S000000141" }, { "database": "iPTMnet", "id": "P07256", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07256" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser133" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P07256-1.116.116", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07256-1.135.135", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07256-1.140.140", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07256-1.135.135", "start_pos": 135, "end_pos": 135, "uniprot_canonical_ac": "P07256-1", "length": 457, "uniprot_id": "QCR1_YEAST", "protein_name": "Cytochrome b-c1 complex subunit 1, mitochondrial", "refseq_ac": "NP_009508", "refseq_name": "ubiquinol--cytochrome-c reductase subunit COR1", "gene_name": "COR1", "gene_names_uniprotkb": "COR1; QCR1; YBL0403", "gene_names_refseq": "COR1; QCR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07256", "url": "https://www.uniprot.org/uniprotkb/P07256" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07256", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07256" } ], "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": "P07256", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07256" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000141", "url": "https://www.yeastgenome.org/locus/S000000141", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07256", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07256", "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": "KSLDFLNQSFIQQKANLLSS", "down_seq": "NFEATKKSVLKQVQDFEEND", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000141", "url": "https://www.yeastgenome.org/locus/S000000141" }, { "database": "iPTMnet", "id": "P07256", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07256" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser135" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P07256-1.116.116", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07256-1.133.133", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07256-1.140.140", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07256-1.140.140", "start_pos": 140, "end_pos": 140, "uniprot_canonical_ac": "P07256-1", "length": 457, "uniprot_id": "QCR1_YEAST", "protein_name": "Cytochrome b-c1 complex subunit 1, mitochondrial", "refseq_ac": "NP_009508", "refseq_name": "ubiquinol--cytochrome-c reductase subunit COR1", "gene_name": "COR1", "gene_names_uniprotkb": "COR1; QCR1; YBL0403", "gene_names_refseq": "COR1; QCR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07256", "url": "https://www.uniprot.org/uniprotkb/P07256" } ], "common_name": "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": "P07256", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07256" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P07256", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07256", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000141", "url": "https://www.yeastgenome.org/locus/S000000141", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "LNQSFIQQKANLLSSSNFEA", "down_seq": "KKSVLKQVQDFEENDHPNRV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07256", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07256" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000141", "url": "https://www.yeastgenome.org/locus/S000000141" } ], "site_lbl": "Thr140" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P07256-1.133.133", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07256-1.135.135", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07256-1.172.172", "start_pos": 172, "end_pos": 172, "uniprot_canonical_ac": "P07256-1", "length": 457, "uniprot_id": "QCR1_YEAST", "protein_name": "Cytochrome b-c1 complex subunit 1, mitochondrial", "refseq_ac": "NP_009508", "refseq_name": "ubiquinol--cytochrome-c reductase subunit COR1", "gene_name": "COR1", "gene_names_uniprotkb": "COR1; QCR1; YBL0403", "gene_names_refseq": "COR1; QCR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07256", "url": "https://www.uniprot.org/uniprotkb/P07256" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07256", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07256" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000141", "url": "https://www.yeastgenome.org/locus/S000000141", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07256", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07256", "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": "EENDHPNRVLEHLHSTAFQN", "down_seq": "PLSLPTRGTLESLENLVVAD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000141", "url": "https://www.yeastgenome.org/locus/S000000141" }, { "database": "iPTMnet", "id": "P07256", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07256" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr172" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P07256-1.175.175", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07256-1.175.175", "start_pos": 175, "end_pos": 175, "uniprot_canonical_ac": "P07256-1", "length": 457, "uniprot_id": "QCR1_YEAST", "protein_name": "Cytochrome b-c1 complex subunit 1, mitochondrial", "refseq_ac": "NP_009508", "refseq_name": "ubiquinol--cytochrome-c reductase subunit COR1", "gene_name": "COR1", "gene_names_uniprotkb": "COR1; QCR1; YBL0403", "gene_names_refseq": "COR1; QCR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07256", "url": "https://www.uniprot.org/uniprotkb/P07256" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07256", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07256" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000141", "url": "https://www.yeastgenome.org/locus/S000000141", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07256", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07256", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DHPNRVLEHLHSTAFQNTPL", "down_seq": "LPTRGTLESLENLVVADLES", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000141", "url": "https://www.yeastgenome.org/locus/S000000141" }, { "database": "iPTMnet", "id": "P07256", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07256" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser175" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P07256-1.172.172", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07256-1.229.229", "start_pos": 229, "end_pos": 229, "uniprot_canonical_ac": "P07256-1", "length": 457, "uniprot_id": "QCR1_YEAST", "protein_name": "Cytochrome b-c1 complex subunit 1, mitochondrial", "refseq_ac": "NP_009508", "refseq_name": "ubiquinol--cytochrome-c reductase subunit COR1", "gene_name": "COR1", "gene_names_uniprotkb": "COR1; QCR1; YBL0403", "gene_names_refseq": "COR1; QCR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07256", "url": "https://www.uniprot.org/uniprotkb/P07256" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07256", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07256" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000141", "url": "https://www.yeastgenome.org/locus/S000000141", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07256", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07256", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VGTGNIKHEDLVNSIESKNL", "down_seq": "LQTGTKPVLKKKAAFLGSEV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000141", "url": "https://www.yeastgenome.org/locus/S000000141" }, { "database": "iPTMnet", "id": "P07256", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07256" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser229" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "upstream", "id": "P07256-1.247.247", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07256-1.247.247", "start_pos": 247, "end_pos": 247, "uniprot_canonical_ac": "P07256-1", "length": 457, "uniprot_id": "QCR1_YEAST", "protein_name": "Cytochrome b-c1 complex subunit 1, mitochondrial", "refseq_ac": "NP_009508", "refseq_name": "ubiquinol--cytochrome-c reductase subunit COR1", "gene_name": "COR1", "gene_names_uniprotkb": "COR1; QCR1; YBL0403", "gene_names_refseq": "COR1; QCR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07256", "url": "https://www.uniprot.org/uniprotkb/P07256" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07256", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07256" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07256", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07256" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000141", "url": "https://www.yeastgenome.org/locus/S000000141", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07256", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07256", "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": "NLSLQTGTKPVLKKKAAFLG", "down_seq": "EVRLRDDTLPKAWISLAVEG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000141", "url": "https://www.yeastgenome.org/locus/S000000141" }, { "database": "iPTMnet", "id": "P07256", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07256" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser247" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P07256-1.229.229", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07257-1.141.141", "start_pos": 141, "end_pos": 141, "uniprot_canonical_ac": "P07257-1", "length": 368, "uniprot_id": "QCR2_YEAST", "protein_name": "Cytochrome b-c1 complex subunit 2, mitochondrial", "refseq_ac": "NP_015517", "refseq_name": "ubiquinol--cytochrome-c reductase subunit 2", "gene_name": "QCR2", "gene_names_uniprotkb": "QCR2; COR2; P9677.6; UCR2", "gene_names_refseq": "COR2; QCR2; UCR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07257", "url": "https://www.uniprot.org/uniprotkb/P07257" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Profiling phosphoproteins of yeast mitochondria reveals a role of phosphorylation in assembly of the ATP synthase.", "journal": "Molecular & cellular proteomics : MCP", "date": "2007-11", "authors": "Reinders J\u00f6rg, Wagner Karina, Zahedi Rene P, Stojanovski Diana, Eyrich Beate, van der Laan Martin, Rehling Peter, Sickmann Albert, Pfanner Nikolaus, Meisinger Chris", "evidence": [ { "database": "UniProtKB", "id": "P07257", "url": "https://www.uniprot.org/uniprotkb/P07257" }, { "database": "iPTMnet", "id": "P07257", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07257" } ], "reference": [ { "type": "PubMed", "id": "17761666", "url": "https://glygen.org/publication/PubMed/17761666" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07257", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07257" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P07257", "url": "https://www.uniprot.org/uniprotkb/P07257", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17761666", "url": "https://glygen.org/publication/PubMed/17761666", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07257", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07257", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000006395", "url": "https://www.yeastgenome.org/locus/S000006395", "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": "ESVLPAARYDYAVAEQCPVK", "down_seq": "AEDQLYAITFRKGLGNPLLY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07257", "url": "https://www.uniprot.org/uniprotkb/P07257" }, { "database": "PubMed", "id": "17761666", "url": "https://glygen.org/publication/PubMed/17761666" }, { "database": "iPTMnet", "id": "P07257", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07257" }, { "database": "SGD", "id": "S000006395", "url": "https://www.yeastgenome.org/locus/S000006395" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser141" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "141", "end_pos": "141" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "59", "end_pos": "59" }, { "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07257-1.168.168", "start_pos": 168, "end_pos": 168, "uniprot_canonical_ac": "P07257-1", "length": 368, "uniprot_id": "QCR2_YEAST", "protein_name": "Cytochrome b-c1 complex subunit 2, mitochondrial", "refseq_ac": "NP_015517", "refseq_name": "ubiquinol--cytochrome-c reductase subunit 2", "gene_name": "QCR2", "gene_names_uniprotkb": "QCR2; COR2; P9677.6; UCR2", "gene_names_refseq": "COR2; QCR2; UCR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07257", "url": "https://www.uniprot.org/uniprotkb/P07257" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07257", "url": "https://www.uniprot.org/uniprotkb/P07257" }, { "database": "iPTMnet", "id": "P07257", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07257" } ], "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": "P07257", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07257" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07257", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07257" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07257", "url": "https://www.uniprot.org/uniprotkb/P07257", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07257", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07257", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000006395", "url": "https://www.yeastgenome.org/locus/S000006395", "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": "AITFRKGLGNPLLYDGVERV", "down_seq": "LQDIKDFADKVYTKENLEVS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07257", "url": "https://www.uniprot.org/uniprotkb/P07257" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P07257", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07257" }, { "database": "SGD", "id": "S000006395", "url": "https://www.yeastgenome.org/locus/S000006395" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser168" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "141", "end_pos": "141" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "59", "end_pos": "59" }, { "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": "P07257-1.280.280", "start_pos": 280, "end_pos": 280, "uniprot_canonical_ac": "P07257-1", "length": 368, "uniprot_id": "QCR2_YEAST", "protein_name": "Cytochrome b-c1 complex subunit 2, mitochondrial", "refseq_ac": "NP_015517", "refseq_name": "ubiquinol--cytochrome-c reductase subunit 2", "gene_name": "QCR2", "gene_names_uniprotkb": "QCR2; COR2; P9677.6; UCR2", "gene_names_refseq": "COR2; QCR2; UCR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07257", "url": "https://www.uniprot.org/uniprotkb/P07257" } ], "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": "P07257", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07257" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P07257", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07257", "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": "LTSALSELSGLISSAKLDKF", "down_seq": "DGGLFTLFVRDQDSAVVSSN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07257", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07257" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Thr280" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "141", "end_pos": "141" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "59", "end_pos": "59" }, { "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": "P07257-1.331.331", "start_pos": 331, "end_pos": 331, "uniprot_canonical_ac": "P07257-1", "length": 368, "uniprot_id": "QCR2_YEAST", "protein_name": "Cytochrome b-c1 complex subunit 2, mitochondrial", "refseq_ac": "NP_015517", "refseq_name": "ubiquinol--cytochrome-c reductase subunit 2", "gene_name": "QCR2", "gene_names_uniprotkb": "QCR2; COR2; P9677.6; UCR2", "gene_names_refseq": "COR2; QCR2; UCR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07257", "url": "https://www.uniprot.org/uniprotkb/P07257" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07257", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07257" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006395", "url": "https://www.yeastgenome.org/locus/S000006395", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07257", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07257", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GKDLSPAINYTKLKNAVQNE", "down_seq": "VSSPIELNFDAVKDFKLGKF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006395", "url": "https://www.yeastgenome.org/locus/S000006395" }, { "database": "iPTMnet", "id": "P07257", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07257" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser331" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "141", "end_pos": "141" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P07257-1.333.333", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07257-1.334.334", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07257-1.333.333", "start_pos": 333, "end_pos": 333, "uniprot_canonical_ac": "P07257-1", "length": 368, "uniprot_id": "QCR2_YEAST", "protein_name": "Cytochrome b-c1 complex subunit 2, mitochondrial", "refseq_ac": "NP_015517", "refseq_name": "ubiquinol--cytochrome-c reductase subunit 2", "gene_name": "QCR2", "gene_names_uniprotkb": "QCR2; COR2; P9677.6; UCR2", "gene_names_refseq": "COR2; QCR2; UCR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07257", "url": "https://www.uniprot.org/uniprotkb/P07257" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07257", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07257" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006395", "url": "https://www.yeastgenome.org/locus/S000006395", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07257", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07257", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DLSPAINYTKLKNAVQNESV", "down_seq": "SPIELNFDAVKDFKLGKFNY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006395", "url": "https://www.yeastgenome.org/locus/S000006395" }, { "database": "iPTMnet", "id": "P07257", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07257" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser333" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "141", "end_pos": "141" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07257-1.331.331", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07257-1.334.334", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07257-1.334.334", "start_pos": 334, "end_pos": 334, "uniprot_canonical_ac": "P07257-1", "length": 368, "uniprot_id": "QCR2_YEAST", "protein_name": "Cytochrome b-c1 complex subunit 2, mitochondrial", "refseq_ac": "NP_015517", "refseq_name": "ubiquinol--cytochrome-c reductase subunit 2", "gene_name": "QCR2", "gene_names_uniprotkb": "QCR2; COR2; P9677.6; UCR2", "gene_names_refseq": "COR2; QCR2; UCR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07257", "url": "https://www.uniprot.org/uniprotkb/P07257" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07257", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07257" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006395", "url": "https://www.yeastgenome.org/locus/S000006395", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07257", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07257", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LSPAINYTKLKNAVQNESVS", "down_seq": "PIELNFDAVKDFKLGKFNYV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006395", "url": "https://www.yeastgenome.org/locus/S000006395" }, { "database": "iPTMnet", "id": "P07257", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07257" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser334" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "141", "end_pos": "141" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P07257-1.331.331", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07257-1.333.333", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07257-1.59.59", "start_pos": 59, "end_pos": 59, "uniprot_canonical_ac": "P07257-1", "length": 368, "uniprot_id": "QCR2_YEAST", "protein_name": "Cytochrome b-c1 complex subunit 2, mitochondrial", "refseq_ac": "NP_015517", "refseq_name": "ubiquinol--cytochrome-c reductase subunit 2", "gene_name": "QCR2", "gene_names_uniprotkb": "QCR2; COR2; P9677.6; UCR2", "gene_names_refseq": "COR2; QCR2; UCR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07257", "url": "https://www.uniprot.org/uniprotkb/P07257" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07257", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07257" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006395", "url": "https://www.yeastgenome.org/locus/S000006395", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07257", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07257", "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": "SRYATKDGVAHLLNRFNFQN", "down_seq": "NTRSALKLVRESELLGGTFK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006395", "url": "https://www.yeastgenome.org/locus/S000006395" }, { "database": "iPTMnet", "id": "P07257", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07257" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr59" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "141", "end_pos": "141" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P07257-1.61.61", "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": "P07257-1.61.61", "start_pos": 61, "end_pos": 61, "uniprot_canonical_ac": "P07257-1", "length": 368, "uniprot_id": "QCR2_YEAST", "protein_name": "Cytochrome b-c1 complex subunit 2, mitochondrial", "refseq_ac": "NP_015517", "refseq_name": "ubiquinol--cytochrome-c reductase subunit 2", "gene_name": "QCR2", "gene_names_uniprotkb": "QCR2; COR2; P9677.6; UCR2", "gene_names_refseq": "COR2; QCR2; UCR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07257", "url": "https://www.uniprot.org/uniprotkb/P07257" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07257", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07257" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006395", "url": "https://www.yeastgenome.org/locus/S000006395", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07257", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07257", "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": "YATKDGVAHLLNRFNFQNTN", "down_seq": "RSALKLVRESELLGGTFKST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006395", "url": "https://www.yeastgenome.org/locus/S000006395" }, { "database": "iPTMnet", "id": "P07257", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07257" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr61" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "141", "end_pos": "141" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07257-1.59.59", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07259-1.11.11", "start_pos": 11, "end_pos": 11, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "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": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "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": "MATIAPTAPI", "down_seq": "PPMESTGDRLVTLELKDGTV", "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": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "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" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P07259-1.3.3", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07259-1.7.7", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07259-1.390.390", "start_pos": 390, "end_pos": 390, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "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": "NEGIYHSELPYFSVQFHPES", "down_seq": "PGPRDTEFLFDVFIQAVKEF", "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": "Thr390", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "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": "P07259-1.7.7", "start_pos": 7, "end_pos": 7, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "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": "MATIAP", "down_seq": "APITPPMESTGDRLVTLELK", "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": "Thr7", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P07259-1.3.3", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07259-1.11.11", "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": 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": "P07259-1.1085.1085", "start_pos": 1085, "end_pos": 1085, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "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": "QTSNNIAMTLHRENVKILGT", "down_seq": "PDMIDSAENRYKFSRMLDQI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1085" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07259-1.1123.1123", "start_pos": 1123, "end_pos": 1123, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DQIGVDQPAWKELTSMDEAE", "down_seq": "FAEKVGYPVLVRPSYVLSGA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1123" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07259-1.1269.1269", "start_pos": 1269, "end_pos": 1269, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "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": "QFIAKDNEIKVIECNVRASR", "down_seq": "FPFISKVVGVNLIELATKAI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser1269" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07259-1.1295.1295", "start_pos": 1295, "end_pos": 1295, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "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": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "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": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666", "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": "KVVGVNLIELATKAIMGLPL", "down_seq": "PYPVEKLPDDYVAVKVPQFS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr1295" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "upstream", "id": "P07259-1.1315.1315", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07259-1.1315.1315", "start_pos": 1315, "end_pos": 1315, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "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": "TPYPVEKLPDDYVAVKVPQF", "down_seq": "FPRLAGADPVLGVEMASTGE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1315" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07259-1.1295.1295", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07259-1.1350.1350", "start_pos": 1350, "end_pos": 1350, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "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": "MASTGEVATFGHSKYEAYLK", "down_seq": "LLATGFKLPKKNILLSIGSY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser1350" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07259-1.1422.1422", "start_pos": 1422, "end_pos": 1422, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EHGIAVQYLEVLNKDDDDQK", "down_seq": "EYSLTQHLANNEIDLYINLP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1422" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07259-1.1452.1452", "start_pos": 1452, "end_pos": 1452, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "common_name": "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": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "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": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "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": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "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": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NNEIDLYINLPSANRFRRPA", "down_seq": "YVSKGYKTRRLAVDYSVPLV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1452" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P07259-1.1453.1453", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07259-1.1455.1455", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07259-1.1453.1453", "start_pos": 1453, "end_pos": 1453, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "common_name": "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": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "NEIDLYINLPSANRFRRPAS", "down_seq": "VSKGYKTRRLAVDYSVPLVT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ], "site_lbl": "Tyr1453" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P07259-1.1452.1452", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07259-1.1455.1455", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07259-1.1455.1455", "start_pos": 1455, "end_pos": 1455, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IDLYINLPSANRFRRPASYV", "down_seq": "KGYKTRRLAVDYSVPLVTNV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1455" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P07259-1.1452.1452", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07259-1.1453.1453", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07259-1.1551.1551", "start_pos": 1551, "end_pos": 1551, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "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": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "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": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666", "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": "KETTRLFLESGFTYCQLMPR", "down_seq": "ISGPVITDVASLKAANSVSQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1551" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P07259-1.1553.1553", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07259-1.1558.1558", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07259-1.1562.1562", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07259-1.1553.1553", "start_pos": 1553, "end_pos": 1553, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "common_name": "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": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "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": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "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": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "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": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666", "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": "TTRLFLESGFTYCQLMPRSI", "down_seq": "GPVITDVASLKAANSVSQDS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666" }, { "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": "Ser1553" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07259-1.1551.1551", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07259-1.1558.1558", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07259-1.1562.1562", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07259-1.1558.1558", "start_pos": 1558, "end_pos": 1558, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "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": "LESGFTYCQLMPRSISGPVI", "down_seq": "DVASLKAANSVSQDSSYTDF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr1558" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P07259-1.1551.1551", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07259-1.1553.1553", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07259-1.1562.1562", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07259-1.1562.1562", "start_pos": 1562, "end_pos": 1562, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "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": "FTYCQLMPRSISGPVITDVA", "down_seq": "LKAANSVSQDSSYTDFSFTI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser1562" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P07259-1.1551.1551", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P07259-1.1553.1553", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07259-1.1558.1558", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07259-1.1651.1651", "start_pos": 1651, "end_pos": 1651, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "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": "AEAKTADLASVLLLTSLQNR", "down_seq": "IHITGVSNKEDLALIMTVKA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser1651" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07259-1.1816.1816", "start_pos": 1816, "end_pos": 1816, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "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": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "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": "WSPFNKDMNGGIERVVYNGE", "down_seq": "LVLSGELVSPGAKGKCIVNP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Thr1816" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07259-1.1844.1844", "start_pos": 1844, "end_pos": 1844, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VSPGAKGKCIVNPSPASITA", "down_seq": "AELQSTSAKRRFSITEEAIA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1844" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "upstream", "id": "P07259-1.1857.1857", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07259-1.1859.1859", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07259-1.1857.1857", "start_pos": 1857, "end_pos": 1857, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "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": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "title": "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-02-13", "authors": "Chi An, Huttenhower Curtis, Geer Lewis Y, Coon Joshua J, Syka John E P, Bai Dina L, Shabanowitz Jeffrey, Burke Daniel J, Troyanskaya Olga G, Hunt Donald F", "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "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": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "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": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Yeast carbamoyl-phosphate-synthetase--aspartate-transcarbamylase multidomain protein is phosphorylated in vitro by cAMP-dependent protein kinase.", "journal": "European journal of biochemistry", "date": "1990-10-24", "authors": "Denis-Duphil M, Lecaer J P, Hardie D G, Carrey E A", "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "1977585", "url": "https://glygen.org/publication/PubMed/1977585" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Asc1p/RACK1 Connects Ribosomes to Eukaryotic Phosphosignaling.", "journal": "Molecular and cellular biology", "date": "2017-02-01", "authors": "Schmitt Kerstin, Smolinski Nadine, Neumann Piotr, Schmaul Samantha, Hofer-Pretz Verena, Braus Gerhard H, Valerius Oliver", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "27821475", "url": "https://glygen.org/publication/PubMed/27821475" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "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": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "1977585", "url": "https://glygen.org/publication/PubMed/1977585", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "27821475", "url": "https://glygen.org/publication/PubMed/27821475", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SPASITASAELQSTSAKRRF", "down_seq": "ITEEAIADNLDAAEDAIPEQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine; by PKA", "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "1977585", "url": "https://glygen.org/publication/PubMed/1977585" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666" }, { "database": "PubMed", "id": "27821475", "url": "https://glygen.org/publication/PubMed/27821475" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1857" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P07259-1.1844.1844", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07259-1.1859.1859", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07259-1.1859.1859", "start_pos": 1859, "end_pos": 1859, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "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": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "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": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "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": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Asc1p/RACK1 Connects Ribosomes to Eukaryotic Phosphosignaling.", "journal": "Molecular and cellular biology", "date": "2017-02-01", "authors": "Schmitt Kerstin, Smolinski Nadine, Neumann Piotr, Schmaul Samantha, Hofer-Pretz Verena, Braus Gerhard H, Valerius Oliver", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "27821475", "url": "https://glygen.org/publication/PubMed/27821475" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "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": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "27821475", "url": "https://glygen.org/publication/PubMed/27821475", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "ASITASAELQSTSAKRRFSI", "down_seq": "EEAIADNLDAAEDAIPEQPL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666" }, { "database": "PubMed", "id": "27821475", "url": "https://glygen.org/publication/PubMed/27821475" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr1859" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P07259-1.1844.1844", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07259-1.1857.1857", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07259-1.1965.1965", "start_pos": 1965, "end_pos": 1965, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DLMKGHVITTIFFEPSTRTC", "down_seq": "SFIAAMERLGGRIVNVNPLV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1965" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P07259-1.1966.1966", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07259-1.1966.1966", "start_pos": 1966, "end_pos": 1966, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LMKGHVITTIFFEPSTRTCS", "down_seq": "FIAAMERLGGRIVNVNPLVS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1966" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P07259-1.1965.1965", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07259-1.1986.1986", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07259-1.1986.1986", "start_pos": 1986, "end_pos": 1986, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "common_name": "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": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "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": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "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": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "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": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666", "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": "SFIAAMERLGGRIVNVNPLV", "down_seq": "SVKKGETLQDTIRTLACYSD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "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": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1986" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07259-1.1966.1966", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07259-1.1987.1987", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07259-1.1987.1987", "start_pos": 1987, "end_pos": 1987, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "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": "FIAAMERLGGRIVNVNPLVS", "down_seq": "VKKGETLQDTIRTLACYSDA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser1987" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P07259-1.1986.1986", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07259-1.2142.2142", "start_pos": 2142, "end_pos": 2142, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "common_name": "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": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "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": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "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": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "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": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666", "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": "HIISKTDVLYCTRVQEERFN", "down_seq": "PEEYARLKDTYIVDNKILAH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "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": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2142" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07259-1.3.3", "start_pos": 3, "end_pos": 3, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "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": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "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": "MA", "down_seq": "IAPTAPITPPMESTGDRLVT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Thr3" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P07259-1.7.7", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07259-1.11.11", "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": "P07259-1.547.547", "start_pos": 547, "end_pos": 547, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "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": "LSVGIAMKDEFEALGVKVLG", "down_seq": "PIDTIITTEDRELFSNAIDE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr547" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07259-1.575.575", "start_pos": 575, "end_pos": 575, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "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": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "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": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666", "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": "TEDRELFSNAIDEINEKCAK", "down_seq": "QAANSVDEALAAVKEIGFPV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser575" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P07259-1.580.580", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07259-1.580.580", "start_pos": 580, "end_pos": 580, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LFSNAIDEINEKCAKSQAAN", "down_seq": "VDEALAAVKEIGFPVIVRAA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser580" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P07259-1.575.575", "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": "P07259-1.764.764", "start_pos": 764, "end_pos": 764, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PLAYTAAKLGLNIPLNEVKN", "down_seq": "VTKSTCACFEPSLDYCVVKM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser764" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07259-1.793.793", "start_pos": 793, "end_pos": 793, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "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": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "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": "FEPSLDYCVVKMPRWDLKKF", "down_seq": "RVSTELSSSMKSVGEVMSIG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Thr793" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P07259-1.796.796", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07259-1.797.797", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07259-1.802.802", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P07259-1.805.805", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P07259-1.811.811", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07259-1.796.796", "start_pos": 796, "end_pos": 796, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "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": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "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": "SLDYCVVKMPRWDLKKFTRV", "down_seq": "TELSSSMKSVGEVMSIGRTF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser796" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P07259-1.793.793", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07259-1.797.797", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07259-1.802.802", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07259-1.805.805", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07259-1.811.811", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07259-1.797.797", "start_pos": 797, "end_pos": 797, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "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": "LDYCVVKMPRWDLKKFTRVS", "down_seq": "ELSSSMKSVGEVMSIGRTFE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr797" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P07259-1.793.793", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07259-1.796.796", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07259-1.802.802", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07259-1.805.805", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07259-1.811.811", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07259-1.802.802", "start_pos": 802, "end_pos": 802, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VKMPRWDLKKFTRVSTELSS", "down_seq": "MKSVGEVMSIGRTFEEAIQK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser802" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P07259-1.793.793", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07259-1.796.796", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07259-1.797.797", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07259-1.805.805", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07259-1.811.811", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07259-1.805.805", "start_pos": 805, "end_pos": 805, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "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": "PRWDLKKFTRVSTELSSSMK", "down_seq": "VGEVMSIGRTFEEAIQKAIR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser805" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P07259-1.793.793", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P07259-1.796.796", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07259-1.797.797", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07259-1.802.802", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07259-1.811.811", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07259-1.811.811", "start_pos": 811, "end_pos": 811, "uniprot_canonical_ac": "P07259-1", "length": 2214, "uniprot_id": "PYR1_YEAST", "protein_name": "Multifunctional protein URA2", "refseq_ac": "NP_012405", "refseq_name": "bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase", "gene_name": "URA2", "gene_names_uniprotkb": "URA2; J0686", "gene_names_refseq": "URA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07259", "url": "https://www.uniprot.org/uniprotkb/P07259" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KFTRVSTELSSSMKSVGEVM", "down_seq": "IGRTFEEAIQKAIRSTEYAN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003666", "url": "https://www.yeastgenome.org/locus/S000003666" }, { "database": "iPTMnet", "id": "P07259", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07259" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser811" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "7", "end_pos": "7" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1123", "end_pos": "1123" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "1269", "end_pos": "1269" }, { "start_pos": "1295", "end_pos": "1295" }, { "start_pos": "1315", "end_pos": "1315" }, { "start_pos": "1350", "end_pos": "1350" }, { "start_pos": "1422", "end_pos": "1422" }, { "start_pos": "1452", "end_pos": "1452" }, { "start_pos": "1453", "end_pos": "1453" }, { "start_pos": "1455", "end_pos": "1455" }, { "start_pos": "1551", "end_pos": "1551" }, { "start_pos": "1553", "end_pos": "1553" }, { "start_pos": "1558", "end_pos": "1558" }, { "start_pos": "1562", "end_pos": "1562" }, { "start_pos": "1651", "end_pos": "1651" }, { "start_pos": "1816", "end_pos": "1816" }, { "start_pos": "1844", "end_pos": "1844" }, { "start_pos": "1857", "end_pos": "1857" }, { "start_pos": "1859", "end_pos": "1859" }, { "start_pos": "1965", "end_pos": "1965" }, { "start_pos": "1966", "end_pos": "1966" }, { "start_pos": "1986", "end_pos": "1986" }, { "start_pos": "1987", "end_pos": "1987" }, { "start_pos": "2142", "end_pos": "2142" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "580", "end_pos": "580" }, { "start_pos": "764", "end_pos": "764" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "802", "end_pos": "802" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "811", "end_pos": "811" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P07259-1.793.793", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P07259-1.796.796", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P07259-1.797.797", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P07259-1.802.802", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07259-1.805.805", "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": "P07260-1.15.15", "start_pos": 15, "end_pos": 15, "uniprot_canonical_ac": "P07260-1", "length": 213, "uniprot_id": "IF4E_YEAST", "protein_name": "Eukaryotic translation initiation factor 4E", "refseq_ac": "NP_014502", "refseq_name": "translation initiation factor eIF4E", "gene_name": "CDC33", "gene_names_uniprotkb": "CDC33; TIF45", "gene_names_refseq": "CDC33; TIF45", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway.", "journal": "Molecular & cellular proteomics : MCP", "date": "2005-03", "authors": "Gruhler Albrecht, Olsen Jesper V, Mohammed Shabaz, Mortensen Peter, Faergeman Nils J, Mann Matthias, Jensen Ole N", "evidence": [ { "database": "UniProtKB", "id": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" }, { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "title": "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-02-13", "authors": "Chi An, Huttenhower Curtis, Geer Lewis Y, Coon Joshua J, Syka John E P, Bai Dina L, Shabanowitz Jeffrey, Burke Daniel J, Troyanskaya Olga G, Hunt Donald F", "evidence": [ { "database": "UniProtKB", "id": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" }, { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" }, { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" }, { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" }, { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Characterization of the in vivo phosphorylation sites of the mRNA.cap-binding complex proteins eukaryotic initiation factor-4E and p20 in Saccharomyces cerevisiae.", "journal": "The Journal of biological chemistry", "date": "1995-11-03", "authors": "Zanchin N I, McCarthy J E", "evidence": [ { "database": "UniProtKB", "id": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" }, { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "reference": [ { "type": "PubMed", "id": "7592868", "url": "https://glygen.org/publication/PubMed/7592868" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Targeted Identification of Protein Interactions in Eukaryotic mRNA Translation.", "journal": "Proteomics", "date": "2020-04", "authors": "Link Andrew J, Niu Xinnan, Weaver Connie M, Jennings Jennifer L, Duncan Dexter T, McAfee K Jill, Sammons Morgan, Gerbasi Vince R, Farley Adam R, Fleischer Tracey C, Browne Christopher M, Samir Parimal, Galassie Allison, Boone Braden", "evidence": [ { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "reference": [ { "type": "PubMed", "id": "32027465", "url": "https://glygen.org/publication/PubMed/32027465" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "7592868", "url": "https://glygen.org/publication/PubMed/7592868", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "S000005499", "url": "https://www.yeastgenome.org/locus/S000005499", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32027465", "url": "https://glygen.org/publication/PubMed/32027465", "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": "MSVEEVSKKFEENV", "down_seq": "VDDTTATPKTVLSDSAHFDV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P15790-1", "kinase_gene_name": "CKA1", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "PubMed", "id": "7592868", "url": "https://glygen.org/publication/PubMed/7592868" } ], "site_lbl": "Ser15" }, { "kinase_uniprot_canonical_ac": "P19454-1", "kinase_gene_name": "CKA2", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "PubMed", "id": "7592868", "url": "https://glygen.org/publication/PubMed/7592868" } ], "site_lbl": "Ser15" }, { "kinase_uniprot_canonical_ac": "P38930-1", "kinase_gene_name": "CKB2", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "PubMed", "id": "7592868", "url": "https://glygen.org/publication/PubMed/7592868" } ], "site_lbl": "Ser15" }, { "kinase_uniprot_canonical_ac": "P43639-1", "kinase_gene_name": "CKB1", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "PubMed", "id": "7592868", "url": "https://glygen.org/publication/PubMed/7592868" } ], "site_lbl": "Ser15" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine; by CK2", "evidence": [ { "database": "UniProtKB", "id": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" }, { "database": "SGD", "id": "S000005499", "url": "https://www.yeastgenome.org/locus/S000005499" }, { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" }, { "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": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32027465", "url": "https://glygen.org/publication/PubMed/32027465" }, { "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": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "7592868", "url": "https://glygen.org/publication/PubMed/7592868" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ], "site_lbl": "Ser15" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P07260-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07260-1.7.7", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07260-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07260-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07260-1.22.22", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07260-1.25.25", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07260-1.28.28", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07260-1.30.30", "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": 5 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07260-1.169.169", "start_pos": 169, "end_pos": 169, "uniprot_canonical_ac": "P07260-1", "length": 213, "uniprot_id": "IF4E_YEAST", "protein_name": "Eukaryotic translation initiation factor 4E", "refseq_ac": "NP_014502", "refseq_name": "translation initiation factor eIF4E", "gene_name": "CDC33", "gene_names_uniprotkb": "CDC33; TIF45", "gene_names_refseq": "CDC33; TIF45", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005499", "url": "https://www.yeastgenome.org/locus/S000005499", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260", "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": "INGVVLSIRKGGNKFALWTK", "down_seq": "EDKEPLLRIGGKFKQVLKLT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005499", "url": "https://www.yeastgenome.org/locus/S000005499" }, { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser169" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07260-1.19.19", "start_pos": 19, "end_pos": 19, "uniprot_canonical_ac": "P07260-1", "length": 213, "uniprot_id": "IF4E_YEAST", "protein_name": "Eukaryotic translation initiation factor 4E", "refseq_ac": "NP_014502", "refseq_name": "translation initiation factor eIF4E", "gene_name": "CDC33", "gene_names_uniprotkb": "CDC33; TIF45", "gene_names_refseq": "CDC33; TIF45", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005499", "url": "https://www.yeastgenome.org/locus/S000005499", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260", "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": "MSVEEVSKKFEENVSVDD", "down_seq": "TATPKTVLSDSAHFDVKHPL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005499", "url": "https://www.yeastgenome.org/locus/S000005499" }, { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr19" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P07260-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P07260-1.7.7", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07260-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07260-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07260-1.22.22", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07260-1.25.25", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07260-1.28.28", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07260-1.30.30", "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": "P07260-1.20.20", "start_pos": 20, "end_pos": 20, "uniprot_canonical_ac": "P07260-1", "length": 213, "uniprot_id": "IF4E_YEAST", "protein_name": "Eukaryotic translation initiation factor 4E", "refseq_ac": "NP_014502", "refseq_name": "translation initiation factor eIF4E", "gene_name": "CDC33", "gene_names_uniprotkb": "CDC33; TIF45", "gene_names_refseq": "CDC33; TIF45", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" } ], "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": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005499", "url": "https://www.yeastgenome.org/locus/S000005499", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "", "down_seq": "ATPKTVLSDSAHFDVKHPLN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005499", "url": "https://www.yeastgenome.org/locus/S000005499" }, { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" }, { "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": "Thr20" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P07260-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P07260-1.7.7", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07260-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07260-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07260-1.22.22", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07260-1.25.25", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07260-1.28.28", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07260-1.30.30", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07260-1.22.22", "start_pos": 22, "end_pos": 22, "uniprot_canonical_ac": "P07260-1", "length": 213, "uniprot_id": "IF4E_YEAST", "protein_name": "Eukaryotic translation initiation factor 4E", "refseq_ac": "NP_014502", "refseq_name": "translation initiation factor eIF4E", "gene_name": "CDC33", "gene_names_uniprotkb": "CDC33; TIF45", "gene_names_refseq": "CDC33; TIF45", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" }, { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" }, { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" }, { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260", "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": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260", "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": "S000005499", "url": "https://www.yeastgenome.org/locus/S000005499", "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": "SVEEVSKKFEENVSVDDTTA", "down_seq": "PKTVLSDSAHFDVKHPLNTK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" }, { "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": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" }, { "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": "S000005499", "url": "https://www.yeastgenome.org/locus/S000005499" }, { "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": "Thr22" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07260-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P07260-1.7.7", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P07260-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07260-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07260-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07260-1.25.25", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07260-1.28.28", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07260-1.30.30", "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": 13 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07260-1.25.25", "start_pos": 25, "end_pos": 25, "uniprot_canonical_ac": "P07260-1", "length": 213, "uniprot_id": "IF4E_YEAST", "protein_name": "Eukaryotic translation initiation factor 4E", "refseq_ac": "NP_014502", "refseq_name": "translation initiation factor eIF4E", "gene_name": "CDC33", "gene_names_uniprotkb": "CDC33; TIF45", "gene_names_refseq": "CDC33; TIF45", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Targeted Identification of Protein Interactions in Eukaryotic mRNA Translation.", "journal": "Proteomics", "date": "2020-04", "authors": "Link Andrew J, Niu Xinnan, Weaver Connie M, Jennings Jennifer L, Duncan Dexter T, McAfee K Jill, Sammons Morgan, Gerbasi Vince R, Farley Adam R, Fleischer Tracey C, Browne Christopher M, Samir Parimal, Galassie Allison, Boone Braden", "evidence": [ { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "reference": [ { "type": "PubMed", "id": "32027465", "url": "https://glygen.org/publication/PubMed/32027465" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005499", "url": "https://www.yeastgenome.org/locus/S000005499", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32027465", "url": "https://glygen.org/publication/PubMed/32027465", "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": "EVSKKFEENVSVDDTTATPK", "down_seq": "VLSDSAHFDVKHPLNTKWTL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005499", "url": "https://www.yeastgenome.org/locus/S000005499" }, { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" }, { "database": "PubMed", "id": "32027465", "url": "https://glygen.org/publication/PubMed/32027465" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr25" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P07260-1.7.7", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P07260-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07260-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07260-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07260-1.22.22", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07260-1.28.28", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07260-1.30.30", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07260-1.28.28", "start_pos": 28, "end_pos": 28, "uniprot_canonical_ac": "P07260-1", "length": 213, "uniprot_id": "IF4E_YEAST", "protein_name": "Eukaryotic translation initiation factor 4E", "refseq_ac": "NP_014502", "refseq_name": "translation initiation factor eIF4E", "gene_name": "CDC33", "gene_names_uniprotkb": "CDC33; TIF45", "gene_names_refseq": "CDC33; TIF45", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" }, { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" }, { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260", "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": "S000005499", "url": "https://www.yeastgenome.org/locus/S000005499", "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": "KKFEENVSVDDTTATPKTVL", "down_seq": "DSAHFDVKHPLNTKWTLWYT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" }, { "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": "S000005499", "url": "https://www.yeastgenome.org/locus/S000005499" }, { "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": "Ser28" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P07260-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P07260-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07260-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07260-1.22.22", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07260-1.25.25", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07260-1.30.30", "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": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07260-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P07260-1", "length": 213, "uniprot_id": "IF4E_YEAST", "protein_name": "Eukaryotic translation initiation factor 4E", "refseq_ac": "NP_014502", "refseq_name": "translation initiation factor eIF4E", "gene_name": "CDC33", "gene_names_uniprotkb": "CDC33; TIF45", "gene_names_refseq": "CDC33; TIF45", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Characterization of the in vivo phosphorylation sites of the mRNA.cap-binding complex proteins eukaryotic initiation factor-4E and p20 in Saccharomyces cerevisiae.", "journal": "The Journal of biological chemistry", "date": "1995-11-03", "authors": "Zanchin N I, McCarthy J E", "evidence": [ { "database": "UniProtKB", "id": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" }, { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "reference": [ { "type": "PubMed", "id": "7592868", "url": "https://glygen.org/publication/PubMed/7592868" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "7592868", "url": "https://glygen.org/publication/PubMed/7592868", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "S000005499", "url": "https://www.yeastgenome.org/locus/S000005499", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "M", "down_seq": "VEEVSKKFEENVSVDDTTAT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P15790-1", "kinase_gene_name": "CKA1", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" }, { "database": "PubMed", "id": "7592868", "url": "https://glygen.org/publication/PubMed/7592868" } ], "site_lbl": "Ser2" }, { "kinase_uniprot_canonical_ac": "P19454-1", "kinase_gene_name": "CKA2", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" }, { "database": "PubMed", "id": "7592868", "url": "https://glygen.org/publication/PubMed/7592868" } ], "site_lbl": "Ser2" }, { "kinase_uniprot_canonical_ac": "P38930-1", "kinase_gene_name": "CKB2", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" }, { "database": "PubMed", "id": "7592868", "url": "https://glygen.org/publication/PubMed/7592868" } ], "site_lbl": "Ser2" }, { "kinase_uniprot_canonical_ac": "P43639-1", "kinase_gene_name": "CKB1", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" }, { "database": "PubMed", "id": "7592868", "url": "https://glygen.org/publication/PubMed/7592868" } ], "site_lbl": "Ser2" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine; by CK2", "evidence": [ { "database": "UniProtKB", "id": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" }, { "database": "SGD", "id": "S000005499", "url": "https://www.yeastgenome.org/locus/S000005499" }, { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" }, { "database": "PubMed", "id": "7592868", "url": "https://glygen.org/publication/PubMed/7592868" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P07260-1.7.7", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07260-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P07260-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P07260-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07260-1.22.22", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07260-1.30.30", "start_pos": 30, "end_pos": 30, "uniprot_canonical_ac": "P07260-1", "length": 213, "uniprot_id": "IF4E_YEAST", "protein_name": "Eukaryotic translation initiation factor 4E", "refseq_ac": "NP_014502", "refseq_name": "translation initiation factor eIF4E", "gene_name": "CDC33", "gene_names_uniprotkb": "CDC33; TIF45", "gene_names_refseq": "CDC33; TIF45", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" } ], "common_name": "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": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" }, { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" }, { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" }, { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "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": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "reference": [ { "type": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ] } ], "crossref": [ { "id": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005499", "url": "https://www.yeastgenome.org/locus/S000005499", "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" ] }, { "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FEENVSVDDTTATPKTVLSD", "down_seq": "AHFDVKHPLNTKWTLWYTKP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" }, { "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": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000005499", "url": "https://www.yeastgenome.org/locus/S000005499" }, { "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": "Ser30" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P07260-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P07260-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P07260-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07260-1.22.22", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07260-1.25.25", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07260-1.28.28", "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": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07260-1.55.55", "start_pos": 55, "end_pos": 55, "uniprot_canonical_ac": "P07260-1", "length": 213, "uniprot_id": "IF4E_YEAST", "protein_name": "Eukaryotic translation initiation factor 4E", "refseq_ac": "NP_014502", "refseq_name": "translation initiation factor eIF4E", "gene_name": "CDC33", "gene_names_uniprotkb": "CDC33; TIF45", "gene_names_refseq": "CDC33; TIF45", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005499", "url": "https://www.yeastgenome.org/locus/S000005499", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260", "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": "VKHPLNTKWTLWYTKPAVDK", "down_seq": "ESWSDLLRPVTSFQTVEEFW", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005499", "url": "https://www.yeastgenome.org/locus/S000005499" }, { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser55" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P07260-1.57.57", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07260-1.59.59", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P07260-1.67.67", "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": "P07260-1.57.57", "start_pos": 57, "end_pos": 57, "uniprot_canonical_ac": "P07260-1", "length": 213, "uniprot_id": "IF4E_YEAST", "protein_name": "Eukaryotic translation initiation factor 4E", "refseq_ac": "NP_014502", "refseq_name": "translation initiation factor eIF4E", "gene_name": "CDC33", "gene_names_uniprotkb": "CDC33; TIF45", "gene_names_refseq": "CDC33; TIF45", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005499", "url": "https://www.yeastgenome.org/locus/S000005499", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260", "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": "HPLNTKWTLWYTKPAVDKSE", "down_seq": "WSDLLRPVTSFQTVEEFWAI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005499", "url": "https://www.yeastgenome.org/locus/S000005499" }, { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser57" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07260-1.55.55", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07260-1.59.59", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07260-1.67.67", "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": "P07260-1.59.59", "start_pos": 59, "end_pos": 59, "uniprot_canonical_ac": "P07260-1", "length": 213, "uniprot_id": "IF4E_YEAST", "protein_name": "Eukaryotic translation initiation factor 4E", "refseq_ac": "NP_014502", "refseq_name": "translation initiation factor eIF4E", "gene_name": "CDC33", "gene_names_uniprotkb": "CDC33; TIF45", "gene_names_refseq": "CDC33; TIF45", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005499", "url": "https://www.yeastgenome.org/locus/S000005499", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260", "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": "LNTKWTLWYTKPAVDKSESW", "down_seq": "DLLRPVTSFQTVEEFWAIIQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005499", "url": "https://www.yeastgenome.org/locus/S000005499" }, { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser59" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P07260-1.55.55", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07260-1.57.57", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07260-1.67.67", "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": "P07260-1.67.67", "start_pos": 67, "end_pos": 67, "uniprot_canonical_ac": "P07260-1", "length": 213, "uniprot_id": "IF4E_YEAST", "protein_name": "Eukaryotic translation initiation factor 4E", "refseq_ac": "NP_014502", "refseq_name": "translation initiation factor eIF4E", "gene_name": "CDC33", "gene_names_uniprotkb": "CDC33; TIF45", "gene_names_refseq": "CDC33; TIF45", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005499", "url": "https://www.yeastgenome.org/locus/S000005499", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YTKPAVDKSESWSDLLRPVT", "down_seq": "FQTVEEFWAIIQNIPEPHEL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005499", "url": "https://www.yeastgenome.org/locus/S000005499" }, { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser67" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P07260-1.55.55", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P07260-1.57.57", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07260-1.59.59", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07260-1.7.7", "start_pos": 7, "end_pos": 7, "uniprot_canonical_ac": "P07260-1", "length": 213, "uniprot_id": "IF4E_YEAST", "protein_name": "Eukaryotic translation initiation factor 4E", "refseq_ac": "NP_014502", "refseq_name": "translation initiation factor eIF4E", "gene_name": "CDC33", "gene_names_uniprotkb": "CDC33; TIF45", "gene_names_refseq": "CDC33; TIF45", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005499", "url": "https://www.yeastgenome.org/locus/S000005499", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MSVEEV", "down_seq": "KKFEENVSVDDTTATPKTVL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005499", "url": "https://www.yeastgenome.org/locus/S000005499" }, { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser7" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P07260-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07260-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P07260-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07260-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07260-1.22.22", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P07260-1.25.25", "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": "P07260-1.91.91", "start_pos": 91, "end_pos": 91, "uniprot_canonical_ac": "P07260-1", "length": 213, "uniprot_id": "IF4E_YEAST", "protein_name": "Eukaryotic translation initiation factor 4E", "refseq_ac": "NP_014502", "refseq_name": "translation initiation factor eIF4E", "gene_name": "CDC33", "gene_names_uniprotkb": "CDC33; TIF45", "gene_names_refseq": "CDC33; TIF45", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07260", "url": "https://www.uniprot.org/uniprotkb/P07260" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005499", "url": "https://www.yeastgenome.org/locus/S000005499", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260", "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": "VEEFWAIIQNIPEPHELPLK", "down_seq": "DYHVFRNDVRPEWEDEANAK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005499", "url": "https://www.yeastgenome.org/locus/S000005499" }, { "database": "iPTMnet", "id": "P07260", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07260" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser91" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07261-1.558.558", "start_pos": 558, "end_pos": 558, "uniprot_canonical_ac": "P07261-1", "length": 785, "uniprot_id": "GCR1_YEAST", "protein_name": "Glycolytic genes transcriptional activator GCR1", "refseq_ac": "NP_015250", "refseq_name": "transcription regulator GCR1", "gene_name": "GCR1", "gene_names_uniprotkb": "GCR1; LPF10W; SIT3", "gene_names_refseq": "GCR1; LPF10; SIT3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" } ], "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": "P07261", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P07261" }, { "database": "O-GlcNAc Atlas", "id": "P07261", "url": "https://oglcnac.org/atlas/detail/P07261" } ], "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": "P07261", "url": "https://oglcnac.org/atlas/detail/P07261", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SPTEVAGDDVDREKPPESSK", "down_seq": "EPNDNSPESKDPEKNGKNSN", "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": "Ser558", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P07261", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P07261" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "416", "end_pos": "416" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "602", "end_pos": "602" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07261-1.538.538", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P07261-1.540.540", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07261-1.564.564", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07261-1.567.567", "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": "P07261-1.564.564", "start_pos": 564, "end_pos": 564, "uniprot_canonical_ac": "P07261-1", "length": 785, "uniprot_id": "GCR1_YEAST", "protein_name": "Glycolytic genes transcriptional activator GCR1", "refseq_ac": "NP_015250", "refseq_name": "transcription regulator GCR1", "gene_name": "GCR1", "gene_names_uniprotkb": "GCR1; LPF10W; SIT3", "gene_names_refseq": "GCR1; LPF10; SIT3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" } ], "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": "P07261", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P07261" }, { "database": "O-GlcNAc Atlas", "id": "P07261", "url": "https://oglcnac.org/atlas/detail/P07261" } ], "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": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" }, { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "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": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "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": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "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": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "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": "P07261", "url": "https://oglcnac.org/atlas/detail/P07261", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996", "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": "GDDVDREKPPESSKSEPNDN", "down_seq": "PESKDPEKNGKNSNPLGTDA", "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": "Ser564", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P07261", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P07261" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996" }, { "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": "Ser564" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "416", "end_pos": "416" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "602", "end_pos": "602" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P07261-1.558.558", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07261-1.567.567", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07261-1.567.567", "start_pos": 567, "end_pos": 567, "uniprot_canonical_ac": "P07261-1", "length": 785, "uniprot_id": "GCR1_YEAST", "protein_name": "Glycolytic genes transcriptional activator GCR1", "refseq_ac": "NP_015250", "refseq_name": "transcription regulator GCR1", "gene_name": "GCR1", "gene_names_uniprotkb": "GCR1; LPF10W; SIT3", "gene_names_refseq": "GCR1; LPF10; SIT3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" } ], "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": "P07261", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P07261" }, { "database": "O-GlcNAc Atlas", "id": "P07261", "url": "https://oglcnac.org/atlas/detail/P07261" } ], "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": "P07261", "url": "https://oglcnac.org/atlas/detail/P07261", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VDREKPPESSKSEPNDNSPE", "down_seq": "KDPEKNGKNSNPLGTDADKP", "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": "Ser567", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P07261", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P07261" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "416", "end_pos": "416" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "602", "end_pos": "602" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P07261-1.558.558", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07261-1.564.564", "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": "P07261-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "P07261-1", "length": 785, "uniprot_id": "GCR1_YEAST", "protein_name": "Glycolytic genes transcriptional activator GCR1", "refseq_ac": "NP_015250", "refseq_name": "transcription regulator GCR1", "gene_name": "GCR1", "gene_names_uniprotkb": "GCR1; LPF10W; SIT3", "gene_names_refseq": "GCR1; LPF10; SIT3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" } ], "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": "P07261", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P07261" }, { "database": "O-GlcNAc Atlas", "id": "P07261", "url": "https://oglcnac.org/atlas/detail/P07261" } ], "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": "P07261", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P07261", "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": "P07261", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P07261" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "416", "end_pos": "416" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "602", "end_pos": "602" } ] } ], "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": "P07261-1.416.416", "start_pos": 416, "end_pos": 416, "uniprot_canonical_ac": "P07261-1", "length": 785, "uniprot_id": "GCR1_YEAST", "protein_name": "Glycolytic genes transcriptional activator GCR1", "refseq_ac": "NP_015250", "refseq_name": "transcription regulator GCR1", "gene_name": "GCR1", "gene_names_uniprotkb": "GCR1; LPF10W; SIT3", "gene_names_refseq": "GCR1; LPF10; SIT3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261", "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": "GTLAPQPQDIVQKRKLPLPG", "down_seq": "IASAATGSPFSPSPVGESPY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996" }, { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser416" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "416", "end_pos": "416" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "602", "end_pos": "602" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "upstream", "id": "P07261-1.424.424", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07261-1.427.427", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07261-1.429.429", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P07261-1.434.434", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07261-1.424.424", "start_pos": 424, "end_pos": 424, "uniprot_canonical_ac": "P07261-1", "length": 785, "uniprot_id": "GCR1_YEAST", "protein_name": "Glycolytic genes transcriptional activator GCR1", "refseq_ac": "NP_015250", "refseq_name": "transcription regulator GCR1", "gene_name": "GCR1", "gene_names_uniprotkb": "GCR1; LPF10W; SIT3", "gene_names_refseq": "GCR1; LPF10; SIT3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" } ], "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": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "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": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" }, { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "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": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "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": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261", "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": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996", "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": "DIVQKRKLPLPGSIASAATG", "down_seq": "PFSPSPVGESPYSKRFKLDD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" }, { "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": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996" }, { "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": "Ser424" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "416", "end_pos": "416" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "602", "end_pos": "602" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P07261-1.416.416", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07261-1.427.427", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07261-1.429.429", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07261-1.434.434", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07261-1.427.427", "start_pos": 427, "end_pos": 427, "uniprot_canonical_ac": "P07261-1", "length": 785, "uniprot_id": "GCR1_YEAST", "protein_name": "Glycolytic genes transcriptional activator GCR1", "refseq_ac": "NP_015250", "refseq_name": "transcription regulator GCR1", "gene_name": "GCR1", "gene_names_uniprotkb": "GCR1; LPF10W; SIT3", "gene_names_refseq": "GCR1; LPF10; SIT3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261", "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": "QKRKLPLPGSIASAATGSPF", "down_seq": "PSPVGESPYSKRFKLDDKPT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996" }, { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser427" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "416", "end_pos": "416" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "602", "end_pos": "602" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P07261-1.416.416", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07261-1.424.424", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07261-1.429.429", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07261-1.434.434", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07261-1.447.447", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07261-1.429.429", "start_pos": 429, "end_pos": 429, "uniprot_canonical_ac": "P07261-1", "length": 785, "uniprot_id": "GCR1_YEAST", "protein_name": "Glycolytic genes transcriptional activator GCR1", "refseq_ac": "NP_015250", "refseq_name": "transcription regulator GCR1", "gene_name": "GCR1", "gene_names_uniprotkb": "GCR1; LPF10W; SIT3", "gene_names_refseq": "GCR1; LPF10; SIT3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" } ], "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": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "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": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" }, { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "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": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" }, { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "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": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "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": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261", "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": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996", "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": "RKLPLPGSIASAATGSPFSP", "down_seq": "PVGESPYSKRFKLDDKPTPS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser429" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "416", "end_pos": "416" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "602", "end_pos": "602" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P07261-1.416.416", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07261-1.424.424", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07261-1.427.427", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07261-1.434.434", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P07261-1.447.447", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07261-1.449.449", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07261-1.434.434", "start_pos": 434, "end_pos": 434, "uniprot_canonical_ac": "P07261-1", "length": 785, "uniprot_id": "GCR1_YEAST", "protein_name": "Glycolytic genes transcriptional activator GCR1", "refseq_ac": "NP_015250", "refseq_name": "transcription regulator GCR1", "gene_name": "GCR1", "gene_names_uniprotkb": "GCR1; LPF10W; SIT3", "gene_names_refseq": "GCR1; LPF10; SIT3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" } ], "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": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "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": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996", "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": "PGSIASAATGSPFSPSPVGE", "down_seq": "PYSKRFKLDDKPTPSQTALD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser434" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "416", "end_pos": "416" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "602", "end_pos": "602" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P07261-1.416.416", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P07261-1.424.424", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P07261-1.427.427", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07261-1.429.429", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07261-1.447.447", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07261-1.449.449", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P07261-1.451.451", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07261-1.447.447", "start_pos": 447, "end_pos": 447, "uniprot_canonical_ac": "P07261-1", "length": 785, "uniprot_id": "GCR1_YEAST", "protein_name": "Glycolytic genes transcriptional activator GCR1", "refseq_ac": "NP_015250", "refseq_name": "transcription regulator GCR1", "gene_name": "GCR1", "gene_names_uniprotkb": "GCR1; LPF10W; SIT3", "gene_names_refseq": "GCR1; LPF10; SIT3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" }, { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "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": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "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": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "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": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996", "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": "SPSPVGESPYSKRFKLDDKP", "down_seq": "PSQTALDSLLTKSISSPRLP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996" }, { "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": "Thr447" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "416", "end_pos": "416" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "602", "end_pos": "602" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07261-1.427.427", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P07261-1.429.429", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P07261-1.434.434", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07261-1.449.449", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07261-1.451.451", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07261-1.462.462", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P07261-1.463.463", "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": "P07261-1.449.449", "start_pos": 449, "end_pos": 449, "uniprot_canonical_ac": "P07261-1", "length": 785, "uniprot_id": "GCR1_YEAST", "protein_name": "Glycolytic genes transcriptional activator GCR1", "refseq_ac": "NP_015250", "refseq_name": "transcription regulator GCR1", "gene_name": "GCR1", "gene_names_uniprotkb": "GCR1; LPF10W; SIT3", "gene_names_refseq": "GCR1; LPF10; SIT3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" } ], "common_name": "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": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" }, { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "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": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "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": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "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": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996", "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": "SPVGESPYSKRFKLDDKPTP", "down_seq": "QTALDSLLTKSISSPRLPLS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996" }, { "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": "Ser449" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "416", "end_pos": "416" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "602", "end_pos": "602" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07261-1.429.429", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P07261-1.434.434", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07261-1.447.447", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07261-1.451.451", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07261-1.462.462", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07261-1.463.463", "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": "P07261-1.451.451", "start_pos": 451, "end_pos": 451, "uniprot_canonical_ac": "P07261-1", "length": 785, "uniprot_id": "GCR1_YEAST", "protein_name": "Glycolytic genes transcriptional activator GCR1", "refseq_ac": "NP_015250", "refseq_name": "transcription regulator GCR1", "gene_name": "GCR1", "gene_names_uniprotkb": "GCR1; LPF10W; SIT3", "gene_names_refseq": "GCR1; LPF10; SIT3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261", "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": "VGESPYSKRFKLDDKPTPSQ", "down_seq": "ALDSLLTKSISSPRLPLSTL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996" }, { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr451" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "416", "end_pos": "416" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "602", "end_pos": "602" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P07261-1.434.434", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07261-1.447.447", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07261-1.449.449", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07261-1.462.462", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P07261-1.463.463", "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": "P07261-1.462.462", "start_pos": 462, "end_pos": 462, "uniprot_canonical_ac": "P07261-1", "length": 785, "uniprot_id": "GCR1_YEAST", "protein_name": "Glycolytic genes transcriptional activator GCR1", "refseq_ac": "NP_015250", "refseq_name": "transcription regulator GCR1", "gene_name": "GCR1", "gene_names_uniprotkb": "GCR1; LPF10W; SIT3", "gene_names_refseq": "GCR1; LPF10; SIT3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LDDKPTPSQTALDSLLTKSI", "down_seq": "SPRLPLSTLANTAVTESFRS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996" }, { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser462" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "416", "end_pos": "416" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "602", "end_pos": "602" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P07261-1.447.447", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P07261-1.449.449", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P07261-1.451.451", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07261-1.463.463", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07261-1.482.482", "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": "P07261-1.463.463", "start_pos": 463, "end_pos": 463, "uniprot_canonical_ac": "P07261-1", "length": 785, "uniprot_id": "GCR1_YEAST", "protein_name": "Glycolytic genes transcriptional activator GCR1", "refseq_ac": "NP_015250", "refseq_name": "transcription regulator GCR1", "gene_name": "GCR1", "gene_names_uniprotkb": "GCR1; LPF10W; SIT3", "gene_names_refseq": "GCR1; LPF10; SIT3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DDKPTPSQTALDSLLTKSIS", "down_seq": "PRLPLSTLANTAVTESFRSP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996" }, { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser463" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "416", "end_pos": "416" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "602", "end_pos": "602" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P07261-1.447.447", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P07261-1.449.449", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P07261-1.451.451", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07261-1.462.462", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P07261-1.482.482", "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": "P07261-1.482.482", "start_pos": 482, "end_pos": 482, "uniprot_canonical_ac": "P07261-1", "length": 785, "uniprot_id": "GCR1_YEAST", "protein_name": "Glycolytic genes transcriptional activator GCR1", "refseq_ac": "NP_015250", "refseq_name": "transcription regulator GCR1", "gene_name": "GCR1", "gene_names_uniprotkb": "GCR1; LPF10W; SIT3", "gene_names_refseq": "GCR1; LPF10; SIT3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" }, { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "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": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SSPRLPLSTLANTAVTESFR", "down_seq": "PQQFQHSPDFVVGGSSSSTT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996" }, { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser482" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "416", "end_pos": "416" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "602", "end_pos": "602" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07261-1.462.462", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P07261-1.463.463", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07261-1.489.489", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07261-1.489.489", "start_pos": 489, "end_pos": 489, "uniprot_canonical_ac": "P07261-1", "length": 785, "uniprot_id": "GCR1_YEAST", "protein_name": "Glycolytic genes transcriptional activator GCR1", "refseq_ac": "NP_015250", "refseq_name": "transcription regulator GCR1", "gene_name": "GCR1", "gene_names_uniprotkb": "GCR1; LPF10W; SIT3", "gene_names_refseq": "GCR1; LPF10; SIT3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" }, { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "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": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" }, { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "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": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "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": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261", "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": "STLANTAVTESFRSPQQFQH", "down_seq": "PDFVVGGSSSSTTENNSKKV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996" }, { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" }, { "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": "Ser489" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "416", "end_pos": "416" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "602", "end_pos": "602" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P07261-1.482.482", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07261-1.513.513", "start_pos": 513, "end_pos": 513, "uniprot_canonical_ac": "P07261-1", "length": 785, "uniprot_id": "GCR1_YEAST", "protein_name": "Glycolytic genes transcriptional activator GCR1", "refseq_ac": "NP_015250", "refseq_name": "transcription regulator GCR1", "gene_name": "GCR1", "gene_names_uniprotkb": "GCR1; LPF10W; SIT3", "gene_names_refseq": "GCR1; LPF10; SIT3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" } ], "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": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "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": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "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": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "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": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996", "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": "VVGGSSSSTTENNSKKVNED", "down_seq": "PSSSSKLAERPRLPNNDSTT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996" }, { "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": "Ser513" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "416", "end_pos": "416" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "602", "end_pos": "602" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P07261-1.515.515", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07261-1.516.516", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07261-1.515.515", "start_pos": 515, "end_pos": 515, "uniprot_canonical_ac": "P07261-1", "length": 785, "uniprot_id": "GCR1_YEAST", "protein_name": "Glycolytic genes transcriptional activator GCR1", "refseq_ac": "NP_015250", "refseq_name": "transcription regulator GCR1", "gene_name": "GCR1", "gene_names_uniprotkb": "GCR1; LPF10W; SIT3", "gene_names_refseq": "GCR1; LPF10; SIT3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GGSSSSTTENNSKKVNEDSP", "down_seq": "SSSKLAERPRLPNNDSTTSM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996" }, { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser515" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "416", "end_pos": "416" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "602", "end_pos": "602" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07261-1.513.513", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07261-1.516.516", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07261-1.516.516", "start_pos": 516, "end_pos": 516, "uniprot_canonical_ac": "P07261-1", "length": 785, "uniprot_id": "GCR1_YEAST", "protein_name": "Glycolytic genes transcriptional activator GCR1", "refseq_ac": "NP_015250", "refseq_name": "transcription regulator GCR1", "gene_name": "GCR1", "gene_names_uniprotkb": "GCR1; LPF10W; SIT3", "gene_names_refseq": "GCR1; LPF10; SIT3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" } ], "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": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "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": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "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": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996", "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": "GSSSSTTENNSKKVNEDSPS", "down_seq": "SSKLAERPRLPNNDSTTSMP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser516" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "416", "end_pos": "416" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "602", "end_pos": "602" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P07261-1.513.513", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07261-1.515.515", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07261-1.538.538", "start_pos": 538, "end_pos": 538, "uniprot_canonical_ac": "P07261-1", "length": 785, "uniprot_id": "GCR1_YEAST", "protein_name": "Glycolytic genes transcriptional activator GCR1", "refseq_ac": "NP_015250", "refseq_name": "transcription regulator GCR1", "gene_name": "GCR1", "gene_names_uniprotkb": "GCR1; LPF10W; SIT3", "gene_names_refseq": "GCR1; LPF10; SIT3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" }, { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "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": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "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": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996", "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": "SKLAERPRLPNNDSTTSMPE", "down_seq": "PTEVAGDDVDREKPPESSKS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" }, { "database": "SGD", "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996" }, { "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": "Ser538" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "416", "end_pos": "416" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "602", "end_pos": "602" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P07261-1.540.540", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07261-1.558.558", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07261-1.540.540", "start_pos": 540, "end_pos": 540, "uniprot_canonical_ac": "P07261-1", "length": 785, "uniprot_id": "GCR1_YEAST", "protein_name": "Glycolytic genes transcriptional activator GCR1", "refseq_ac": "NP_015250", "refseq_name": "transcription regulator GCR1", "gene_name": "GCR1", "gene_names_uniprotkb": "GCR1; LPF10W; SIT3", "gene_names_refseq": "GCR1; LPF10; SIT3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261", "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": "LAERPRLPNNDSTTSMPESP", "down_seq": "EVAGDDVDREKPPESSKSEP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996" }, { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr540" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "416", "end_pos": "416" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "602", "end_pos": "602" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07261-1.538.538", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P07261-1.558.558", "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": "P07261-1.602.602", "start_pos": 602, "end_pos": 602, "uniprot_canonical_ac": "P07261-1", "length": 785, "uniprot_id": "GCR1_YEAST", "protein_name": "Glycolytic genes transcriptional activator GCR1", "refseq_ac": "NP_015250", "refseq_name": "transcription regulator GCR1", "gene_name": "GCR1", "gene_names_uniprotkb": "GCR1; LPF10W; SIT3", "gene_names_refseq": "GCR1; LPF10; SIT3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07261", "url": "https://www.uniprot.org/uniprotkb/P07261" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261", "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": "TDADKPVPISNIHNSTEAAN", "down_seq": "SGTVTKTAPSFPQSSSKFEI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005996", "url": "https://www.yeastgenome.org/locus/S000005996" }, { "database": "iPTMnet", "id": "P07261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07261" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser602" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "416", "end_pos": "416" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "602", "end_pos": "602" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07263-1.198.198", "start_pos": 198, "end_pos": 198, "uniprot_canonical_ac": "P07263-1", "length": 546, "uniprot_id": "SYH_YEAST", "protein_name": "Histidine--tRNA ligase, mitochondrial", "refseq_ac": "NP_015358", "refseq_name": "histidine--tRNA ligase", "gene_name": "HTS1", "gene_names_uniprotkb": "HTS1; YP9367.13C", "gene_names_refseq": "HTS1; TS4572; TSM4572", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07263", "url": "https://www.uniprot.org/uniprotkb/P07263" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mutations in mitochondrial histidyl tRNA synthetase HARS2 cause ovarian dysgenesis and sensorineural hearing loss of Perrault syndrome.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2011", "authors": "Pierce SB, Chisholm KM, Lynch ED, Lee MK, Walsh T, Opitz JM, Li W, Klevit RE, King MC", "evidence": [ { "database": "UniProtKB", "id": "P07263", "url": "https://www.uniprot.org/uniprotkb/P07263" } ], "reference": [ { "type": "PubMed", "id": "21464306", "url": "https://glygen.org/publication/PubMed/21464306" } ] } ], "crossref": [ { "id": "P07263", "url": "https://www.uniprot.org/uniprotkb/P07263", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "21464306", "url": "https://glygen.org/publication/PubMed/21464306", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "L", "start_aa": "L", "up_seq": "AGTFESMVPDSECLSILVEG", "down_seq": "TSLGIKDFKIKLNHRKILDG", "mutagenesis": [ { "sequence_org": "L", "sequence_mut": "V", "comment": "Rescues the lethal phenotype of the deletion mutant.", "evidence": [ { "database": "UniProtKB", "id": "P07263", "url": "https://www.uniprot.org/uniprotkb/P07263" }, { "database": "PubMed", "id": "21464306", "url": "https://glygen.org/publication/PubMed/21464306" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "198", "end_pos": "198" }, { "start_pos": "198", "end_pos": "207" }, { "start_pos": "381", "end_pos": "381" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 0, "direction": "upstream", "id": "P07263-1.198.207", "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": "P07263-1.198.207", "start_pos": 198, "end_pos": 207, "uniprot_canonical_ac": "P07263-1", "length": 546, "uniprot_id": "SYH_YEAST", "protein_name": "Histidine--tRNA ligase, mitochondrial", "refseq_ac": "NP_015358", "refseq_name": "histidine--tRNA ligase", "gene_name": "HTS1", "gene_names_uniprotkb": "HTS1; YP9367.13C", "gene_names_refseq": "HTS1; TS4572; TSM4572", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07263", "url": "https://www.uniprot.org/uniprotkb/P07263" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mutations in mitochondrial histidyl tRNA synthetase HARS2 cause ovarian dysgenesis and sensorineural hearing loss of Perrault syndrome.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2011", "authors": "Pierce SB, Chisholm KM, Lynch ED, Lee MK, Walsh T, Opitz JM, Li W, Klevit RE, King MC", "evidence": [ { "database": "UniProtKB", "id": "P07263", "url": "https://www.uniprot.org/uniprotkb/P07263" } ], "reference": [ { "type": "PubMed", "id": "21464306", "url": "https://glygen.org/publication/PubMed/21464306" } ] } ], "crossref": [ { "id": "P07263", "url": "https://www.uniprot.org/uniprotkb/P07263", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "21464306", "url": "https://glygen.org/publication/PubMed/21464306", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "LTSLGIKDFK", "start_aa": "L", "up_seq": "AGTFESMVPDSECLSILVEG", "down_seq": "IKLNHRKILDGIFQIAGVKD", "mutagenesis": [ { "sequence_org": "LTSLGIKDFK", "sequence_mut": "", "comment": "Does not rescue the lethal phenotype of the deletion mutant.", "evidence": [ { "database": "UniProtKB", "id": "P07263", "url": "https://www.uniprot.org/uniprotkb/P07263" }, { "database": "PubMed", "id": "21464306", "url": "https://glygen.org/publication/PubMed/21464306" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "198", "end_pos": "198" }, { "start_pos": "198", "end_pos": "207" }, { "start_pos": "381", "end_pos": "381" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 0, "direction": "downstream", "id": "P07263-1.198.198", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07263-1.381.381", "start_pos": 381, "end_pos": 381, "uniprot_canonical_ac": "P07263-1", "length": 546, "uniprot_id": "SYH_YEAST", "protein_name": "Histidine--tRNA ligase, mitochondrial", "refseq_ac": "NP_015358", "refseq_name": "histidine--tRNA ligase", "gene_name": "HTS1", "gene_names_uniprotkb": "HTS1; YP9367.13C", "gene_names_refseq": "HTS1; TS4572; TSM4572", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07263", "url": "https://www.uniprot.org/uniprotkb/P07263" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mutations in mitochondrial histidyl tRNA synthetase HARS2 cause ovarian dysgenesis and sensorineural hearing loss of Perrault syndrome.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2011", "authors": "Pierce SB, Chisholm KM, Lynch ED, Lee MK, Walsh T, Opitz JM, Li W, Klevit RE, King MC", "evidence": [ { "database": "UniProtKB", "id": "P07263", "url": "https://www.uniprot.org/uniprotkb/P07263" } ], "reference": [ { "type": "PubMed", "id": "21464306", "url": "https://glygen.org/publication/PubMed/21464306" } ] } ], "crossref": [ { "id": "P07263", "url": "https://www.uniprot.org/uniprotkb/P07263", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "21464306", "url": "https://glygen.org/publication/PubMed/21464306", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "V", "start_aa": "V", "up_seq": "DASEFVGVGSIAAGGRYDNL", "down_seq": "NMFSEASGKKSTQIPCVGIS", "mutagenesis": [ { "sequence_org": "V", "sequence_mut": "L", "comment": "Partially rescues the lethal phenotype of the deletion mutant.", "evidence": [ { "database": "UniProtKB", "id": "P07263", "url": "https://www.uniprot.org/uniprotkb/P07263" }, { "database": "PubMed", "id": "21464306", "url": "https://glygen.org/publication/PubMed/21464306" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "198", "end_pos": "198" }, { "start_pos": "198", "end_pos": "207" }, { "start_pos": "381", "end_pos": "381" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P07263-1.370.370", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07263-1.388.388", "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": "P07263-1.110.110", "start_pos": 110, "end_pos": 110, "uniprot_canonical_ac": "P07263-1", "length": 546, "uniprot_id": "SYH_YEAST", "protein_name": "Histidine--tRNA ligase, mitochondrial", "refseq_ac": "NP_015358", "refseq_name": "histidine--tRNA ligase", "gene_name": "HTS1", "gene_names_uniprotkb": "HTS1; YP9367.13C", "gene_names_refseq": "HTS1; TS4572; TSM4572", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07263", "url": "https://www.uniprot.org/uniprotkb/P07263" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006237", "url": "https://www.yeastgenome.org/locus/S000006237", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TIDTPVFELREILAGKYGED", "down_seq": "KLIYNLEDQGGELCSLRYDL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006237", "url": "https://www.yeastgenome.org/locus/S000006237" }, { "database": "iPTMnet", "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser110" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "198", "end_pos": "198" }, { "start_pos": "198", "end_pos": "207" }, { "start_pos": "381", "end_pos": "381" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P07263-1.93.93", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07263-1.125.125", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07263-1.125.125", "start_pos": 125, "end_pos": 125, "uniprot_canonical_ac": "P07263-1", "length": 546, "uniprot_id": "SYH_YEAST", "protein_name": "Histidine--tRNA ligase, mitochondrial", "refseq_ac": "NP_015358", "refseq_name": "histidine--tRNA ligase", "gene_name": "HTS1", "gene_names_uniprotkb": "HTS1; YP9367.13C", "gene_names_refseq": "HTS1; TS4572; TSM4572", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07263", "url": "https://www.uniprot.org/uniprotkb/P07263" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006237", "url": "https://www.yeastgenome.org/locus/S000006237", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263", "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": "KYGEDSKLIYNLEDQGGELC", "down_seq": "LRYDLTVPFARYVAMNNIQS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006237", "url": "https://www.yeastgenome.org/locus/S000006237" }, { "database": "iPTMnet", "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263" }, { "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": "mutagenesis", "site_list": [ { "start_pos": "198", "end_pos": "198" }, { "start_pos": "198", "end_pos": "207" }, { "start_pos": "381", "end_pos": "381" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P07263-1.110.110", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07263-1.235.235", "start_pos": 235, "end_pos": 235, "uniprot_canonical_ac": "P07263-1", "length": 546, "uniprot_id": "SYH_YEAST", "protein_name": "Histidine--tRNA ligase, mitochondrial", "refseq_ac": "NP_015358", "refseq_name": "histidine--tRNA ligase", "gene_name": "HTS1", "gene_names_uniprotkb": "HTS1; YP9367.13C", "gene_names_refseq": "HTS1; TS4572; TSM4572", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07263", "url": "https://www.uniprot.org/uniprotkb/P07263" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006237", "url": "https://www.yeastgenome.org/locus/S000006237", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ILDGIFQIAGVKDEDVRKIS", "down_seq": "AVDKLDKSPWEAVKKEMTEE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006237", "url": "https://www.yeastgenome.org/locus/S000006237" }, { "database": "iPTMnet", "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser235" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "198", "end_pos": "198" }, { "start_pos": "198", "end_pos": "207" }, { "start_pos": "381", "end_pos": "381" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "upstream", "id": "P07263-1.243.243", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07263-1.243.243", "start_pos": 243, "end_pos": 243, "uniprot_canonical_ac": "P07263-1", "length": 546, "uniprot_id": "SYH_YEAST", "protein_name": "Histidine--tRNA ligase, mitochondrial", "refseq_ac": "NP_015358", "refseq_name": "histidine--tRNA ligase", "gene_name": "HTS1", "gene_names_uniprotkb": "HTS1; YP9367.13C", "gene_names_refseq": "HTS1; TS4572; TSM4572", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07263", "url": "https://www.uniprot.org/uniprotkb/P07263" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000006237", "url": "https://www.yeastgenome.org/locus/S000006237", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263", "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": "AGVKDEDVRKISSAVDKLDK", "down_seq": "PWEAVKKEMTEEKGQSEETA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006237", "url": "https://www.yeastgenome.org/locus/S000006237" }, { "database": "iPTMnet", "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser243" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "198", "end_pos": "198" }, { "start_pos": "198", "end_pos": "207" }, { "start_pos": "381", "end_pos": "381" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P07263-1.235.235", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07263-1.30.30", "start_pos": 30, "end_pos": 30, "uniprot_canonical_ac": "P07263-1", "length": 546, "uniprot_id": "SYH_YEAST", "protein_name": "Histidine--tRNA ligase, mitochondrial", "refseq_ac": "NP_015358", "refseq_name": "histidine--tRNA ligase", "gene_name": "HTS1", "gene_names_uniprotkb": "HTS1; YP9367.13C", "gene_names_refseq": "HTS1; TS4572; TSM4572", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07263", "url": "https://www.uniprot.org/uniprotkb/P07263" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006237", "url": "https://www.yeastgenome.org/locus/S000006237", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VTSIKSSSIIRMSSATAAAT", "down_seq": "APTANAANALKASKAPKKGK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006237", "url": "https://www.yeastgenome.org/locus/S000006237" }, { "database": "iPTMnet", "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser30" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "198", "end_pos": "198" }, { "start_pos": "198", "end_pos": "207" }, { "start_pos": "381", "end_pos": "381" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07263-1.358.358", "start_pos": 358, "end_pos": 358, "uniprot_canonical_ac": "P07263-1", "length": 546, "uniprot_id": "SYH_YEAST", "protein_name": "Histidine--tRNA ligase, mitochondrial", "refseq_ac": "NP_015358", "refseq_name": "histidine--tRNA ligase", "gene_name": "HTS1", "gene_names_uniprotkb": "HTS1; YP9367.13C", "gene_names_refseq": "HTS1; TS4572; TSM4572", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07263", "url": "https://www.uniprot.org/uniprotkb/P07263" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000006237", "url": "https://www.yeastgenome.org/locus/S000006237", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263", "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": "VVTSASAPPENASELKKKAK", "down_seq": "AEDASEFVGVGSIAAGGRYD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006237", "url": "https://www.yeastgenome.org/locus/S000006237" }, { "database": "iPTMnet", "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser358" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "198", "end_pos": "198" }, { "start_pos": "198", "end_pos": "207" }, { "start_pos": "381", "end_pos": "381" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "upstream", "id": "P07263-1.370.370", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07263-1.370.370", "start_pos": 370, "end_pos": 370, "uniprot_canonical_ac": "P07263-1", "length": 546, "uniprot_id": "SYH_YEAST", "protein_name": "Histidine--tRNA ligase, mitochondrial", "refseq_ac": "NP_015358", "refseq_name": "histidine--tRNA ligase", "gene_name": "HTS1", "gene_names_uniprotkb": "HTS1; YP9367.13C", "gene_names_refseq": "HTS1; TS4572; TSM4572", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07263", "url": "https://www.uniprot.org/uniprotkb/P07263" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006237", "url": "https://www.yeastgenome.org/locus/S000006237", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SELKKKAKSAEDASEFVGVG", "down_seq": "IAAGGRYDNLVNMFSEASGK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006237", "url": "https://www.yeastgenome.org/locus/S000006237" }, { "database": "iPTMnet", "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser370" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "198", "end_pos": "198" }, { "start_pos": "198", "end_pos": "207" }, { "start_pos": "381", "end_pos": "381" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P07263-1.358.358", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07263-1.381.381", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P07263-1.388.388", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07263-1.388.388", "start_pos": 388, "end_pos": 388, "uniprot_canonical_ac": "P07263-1", "length": 546, "uniprot_id": "SYH_YEAST", "protein_name": "Histidine--tRNA ligase, mitochondrial", "refseq_ac": "NP_015358", "refseq_name": "histidine--tRNA ligase", "gene_name": "HTS1", "gene_names_uniprotkb": "HTS1; YP9367.13C", "gene_names_refseq": "HTS1; TS4572; TSM4572", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07263", "url": "https://www.uniprot.org/uniprotkb/P07263" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006237", "url": "https://www.yeastgenome.org/locus/S000006237", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VGSIAAGGRYDNLVNMFSEA", "down_seq": "GKKSTQIPCVGISFGVERIF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006237", "url": "https://www.yeastgenome.org/locus/S000006237" }, { "database": "iPTMnet", "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser388" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "198", "end_pos": "198" }, { "start_pos": "198", "end_pos": "207" }, { "start_pos": "381", "end_pos": "381" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P07263-1.370.370", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P07263-1.381.381", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07263-1.57.57", "start_pos": 57, "end_pos": 57, "uniprot_canonical_ac": "P07263-1", "length": 546, "uniprot_id": "SYH_YEAST", "protein_name": "Histidine--tRNA ligase, mitochondrial", "refseq_ac": "NP_015358", "refseq_name": "histidine--tRNA ligase", "gene_name": "HTS1", "gene_names_uniprotkb": "HTS1; YP9367.13C", "gene_names_refseq": "HTS1; TS4572; TSM4572", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07263", "url": "https://www.uniprot.org/uniprotkb/P07263" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263" } ], "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": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006237", "url": "https://www.yeastgenome.org/locus/S000006237", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263", "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": "ANALKASKAPKKGKLQVSLK", "down_seq": "PKGTKDWADSDMVIREAIFS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006237", "url": "https://www.yeastgenome.org/locus/S000006237" }, { "database": "iPTMnet", "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr57" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "198", "end_pos": "198" }, { "start_pos": "198", "end_pos": "207" }, { "start_pos": "381", "end_pos": "381" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07263-1.5.5", "start_pos": 5, "end_pos": 5, "uniprot_canonical_ac": "P07263-1", "length": 546, "uniprot_id": "SYH_YEAST", "protein_name": "Histidine--tRNA ligase, mitochondrial", "refseq_ac": "NP_015358", "refseq_name": "histidine--tRNA ligase", "gene_name": "HTS1", "gene_names_uniprotkb": "HTS1; YP9367.13C", "gene_names_refseq": "HTS1; TS4572; TSM4572", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07263", "url": "https://www.uniprot.org/uniprotkb/P07263" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006237", "url": "https://www.yeastgenome.org/locus/S000006237", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MLSR", "down_seq": "LNKVVTSIKSSSIIRMSSAT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006237", "url": "https://www.yeastgenome.org/locus/S000006237" }, { "database": "iPTMnet", "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser5" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "198", "end_pos": "198" }, { "start_pos": "198", "end_pos": "207" }, { "start_pos": "381", "end_pos": "381" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07263-1.80.80", "start_pos": 80, "end_pos": 80, "uniprot_canonical_ac": "P07263-1", "length": 546, "uniprot_id": "SYH_YEAST", "protein_name": "Histidine--tRNA ligase, mitochondrial", "refseq_ac": "NP_015358", "refseq_name": "histidine--tRNA ligase", "gene_name": "HTS1", "gene_names_uniprotkb": "HTS1; YP9367.13C", "gene_names_refseq": "HTS1; TS4572; TSM4572", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07263", "url": "https://www.uniprot.org/uniprotkb/P07263" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006237", "url": "https://www.yeastgenome.org/locus/S000006237", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GTKDWADSDMVIREAIFSTL", "down_seq": "GLFKKHGGVTIDTPVFELRE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006237", "url": "https://www.yeastgenome.org/locus/S000006237" }, { "database": "iPTMnet", "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser80" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "198", "end_pos": "198" }, { "start_pos": "198", "end_pos": "207" }, { "start_pos": "381", "end_pos": "381" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "upstream", "id": "P07263-1.93.93", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07263-1.93.93", "start_pos": 93, "end_pos": 93, "uniprot_canonical_ac": "P07263-1", "length": 546, "uniprot_id": "SYH_YEAST", "protein_name": "Histidine--tRNA ligase, mitochondrial", "refseq_ac": "NP_015358", "refseq_name": "histidine--tRNA ligase", "gene_name": "HTS1", "gene_names_uniprotkb": "HTS1; YP9367.13C", "gene_names_refseq": "HTS1; TS4572; TSM4572", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07263", "url": "https://www.uniprot.org/uniprotkb/P07263" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006237", "url": "https://www.yeastgenome.org/locus/S000006237", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263", "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": "EAIFSTLSGLFKKHGGVTID", "down_seq": "PVFELREILAGKYGEDSKLI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006237", "url": "https://www.yeastgenome.org/locus/S000006237" }, { "database": "iPTMnet", "id": "P07263", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07263" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr93" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "198", "end_pos": "198" }, { "start_pos": "198", "end_pos": "207" }, { "start_pos": "381", "end_pos": "381" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P07263-1.80.80", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P07263-1.110.110", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07264-1.114.114", "start_pos": 114, "end_pos": 114, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LQVKTLENNVKQFGVPYFGM", "down_seq": "DARQGIVHTIGPEEGFTLPG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser114" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07264-1.160.160", "start_pos": 160, "end_pos": 160, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GDSHTSTHGAFGSLAFGIGT", "down_seq": "EVEHVLATQTIIQAKSKNMR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser160" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07264-1.188.188", "start_pos": 188, "end_pos": 188, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "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": "TQTIIQAKSKNMRITVNGKL", "down_seq": "PGITSKDLILYIIGLIGTAG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser188" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07264-1.231.231", "start_pos": 231, "end_pos": 231, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GCVIEFAGEAIEALSMEARM", "down_seq": "MCNMAIEAGARAGMIKPDET", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser231" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07264-1.338.338", "start_pos": 338, "end_pos": 338, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "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": "PDPKNVTDPIKKSGMERALA", "down_seq": "MGLEPNTPLKSIKVDKVFIG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr338" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "upstream", "id": "P07264-1.345.345", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07264-1.349.349", "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": "P07264-1.345.345", "start_pos": 345, "end_pos": 345, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "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": "DPIKKSGMERALAYMGLEPN", "down_seq": "PLKSIKVDKVFIGSCTNGRI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr345" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P07264-1.338.338", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07264-1.349.349", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07264-1.359.359", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P07264-1.361.361", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07264-1.349.349", "start_pos": 349, "end_pos": 349, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KSGMERALAYMGLEPNTPLK", "down_seq": "IKVDKVFIGSCTNGRIEDLR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser349" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P07264-1.338.338", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07264-1.345.345", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07264-1.359.359", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P07264-1.361.361", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07264-1.359.359", "start_pos": 359, "end_pos": 359, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MGLEPNTPLKSIKVDKVFIG", "down_seq": "CTNGRIEDLRSAAAVVRGQK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser359" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P07264-1.345.345", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P07264-1.349.349", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07264-1.361.361", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07264-1.370.370", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07264-1.361.361", "start_pos": 361, "end_pos": 361, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "common_name": "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": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "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": "LEPNTPLKSIKVDKVFIGSC", "down_seq": "NGRIEDLRSAAAVVRGQKLA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr361" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P07264-1.345.345", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P07264-1.349.349", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07264-1.359.359", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07264-1.370.370", "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": "P07264-1.370.370", "start_pos": 370, "end_pos": 370, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IKVDKVFIGSCTNGRIEDLR", "down_seq": "AAAVVRGQKLASNIKLAMVV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser370" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P07264-1.359.359", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P07264-1.361.361", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07264-1.393.393", "start_pos": 393, "end_pos": 393, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "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": "AVVRGQKLASNIKLAMVVPG", "down_seq": "GLVKKQAEAEGLDKIFQEAG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser393" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07264-1.422.422", "start_pos": 422, "end_pos": 422, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AEGLDKIFQEAGFEWREAGC", "down_seq": "ICLGMNPDILDAYERCASTS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser422" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "upstream", "id": "P07264-1.442.442", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07264-1.43.43", "start_pos": 43, "end_pos": 43, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "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": "HQDENGSFLLYIDRHLVHEV", "down_seq": "SPQAFEGLENAGRKVRRVDC", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr43" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P07264-1.44.44", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07264-1.442.442", "start_pos": 442, "end_pos": 442, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SICLGMNPDILDAYERCAST", "down_seq": "NRNFEGRQGALSRTHLMSPA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser442" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07264-1.422.422", "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": "P07264-1.44.44", "start_pos": 44, "end_pos": 44, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "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": "QDENGSFLLYIDRHLVHEVT", "down_seq": "PQAFEGLENAGRKVRRVDCT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser44" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P07264-1.43.43", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07264-1.487.487", "start_pos": 487, "end_pos": 487, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Mol. Cell. Proteomics", "date": "2008", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AGIAGHFVDIREFEYKDQDQ", "down_seq": "SPKVEVTSEDEKELESAAYD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "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": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser487" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P07264-1.488.488", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07264-1.494.494", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07264-1.495.495", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P07264-1.503.503", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P07264-1.506.506", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07264-1.488.488", "start_pos": 488, "end_pos": 488, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "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": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Mol. Cell. Proteomics", "date": "2008", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264", "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "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": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "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": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "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": "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": "GIAGHFVDIREFEYKDQDQS", "down_seq": "PKVEVTSEDEKELESAAYDH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" }, { "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "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": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "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": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "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": "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": "Ser488" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P07264-1.487.487", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07264-1.494.494", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07264-1.495.495", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07264-1.503.503", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P07264-1.506.506", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 14 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07264-1.494.494", "start_pos": 494, "end_pos": 494, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "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": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "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": "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": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "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": "VDIREFEYKDQDQSSPKVEV", "down_seq": "SEDEKELESAAYDHAEPVQP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "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": "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": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "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": "Thr494" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P07264-1.487.487", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07264-1.488.488", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07264-1.495.495", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07264-1.503.503", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P07264-1.506.506", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 11 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07264-1.495.495", "start_pos": 495, "end_pos": 495, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry.", "journal": "Proc. Natl. Acad. Sci. U.S.A.", "date": "2007", "authors": "Chi An, Huttenhower Curtis, Geer Lewis Y, Coon Joshua J, Syka John E P, Bai Dina L, Shabanowitz Jeffrey, Burke Daniel J, Troyanskaya Olga G, Hunt Donald F", "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "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": "DIREFEYKDQDQSSPKVEVT", "down_seq": "EDEKELESAAYDHAEPVQPE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "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": "Ser495" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P07264-1.487.487", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P07264-1.488.488", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07264-1.494.494", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07264-1.503.503", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07264-1.506.506", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 14 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07264-1.4.4", "start_pos": 4, "end_pos": 4, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "common_name": "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": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "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": "MVY", "down_seq": "PSKGPRTLYDKVFDAHVVHQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "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": "Thr4" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07264-1.503.503", "start_pos": 503, "end_pos": 503, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "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": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "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": "DQDQSSPKVEVTSEDEKELE", "down_seq": "AAYDHAEPVQPEDAPQDIAN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser503" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P07264-1.487.487", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P07264-1.488.488", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P07264-1.494.494", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07264-1.495.495", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07264-1.506.506", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07264-1.506.506", "start_pos": 506, "end_pos": 506, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "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": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "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": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "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": "Y", "start_aa": "Y", "up_seq": "QSSPKVEVTSEDEKELESAA", "down_seq": "DHAEPVQPEDAPQDIANDEL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "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": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr506" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P07264-1.487.487", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P07264-1.488.488", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P07264-1.494.494", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P07264-1.495.495", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07264-1.503.503", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07264-1.533.533", "start_pos": 533, "end_pos": 533, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "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": "QPEDAPQDIANDELKDIPVK", "down_seq": "DDTPAKPSSSGMKPFLTLEG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser533" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P07264-1.536.536", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07264-1.541.541", "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": "P07264-1.536.536", "start_pos": 536, "end_pos": 536, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "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": "DAPQDIANDELKDIPVKSDD", "down_seq": "PAKPSSSGMKPFLTLEGISA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr536" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P07264-1.533.533", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07264-1.541.541", "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": "P07264-1.541.541", "start_pos": 541, "end_pos": 541, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IANDELKDIPVKSDDTPAKP", "down_seq": "SSGMKPFLTLEGISAPLDKA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser541" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P07264-1.533.533", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07264-1.536.536", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07264-1.629.629", "start_pos": 629, "end_pos": 629, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VEPWREAEILVVTGDNFGCG", "down_seq": "SREHAPWALKDFGIKSIIAP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser629" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "upstream", "id": "P07264-1.645.645", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07264-1.645.645", "start_pos": 645, "end_pos": 645, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "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": "FGCGSSREHAPWALKDFGIK", "down_seq": "IIAPSYGDIFYNNSFKNGLL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser645" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P07264-1.629.629", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07264-1.659.659", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07264-1.659.659", "start_pos": 659, "end_pos": 659, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "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": "KDFGIKSIIAPSYGDIFYNN", "down_seq": "FKNGLLPIRLDQQIIIDKLI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser659" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P07264-1.645.645", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07264-1.748.748", "start_pos": 748, "end_pos": 748, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "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": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "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": "ITLQKEEYISRYEALRREKY", "down_seq": "FLEGGSKLLKFDNVPKRKAV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "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": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser748" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P07264-1.754.754", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07264-1.74.74", "start_pos": 74, "end_pos": 74, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "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": "AGRKVRRVDCTLATVDHNIP", "down_seq": "ESRKNFKSLDTFIKQTDSRL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr74" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P07264-1.76.76", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07264-1.82.82", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07264-1.85.85", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P07264-1.90.90", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P07264-1.92.92", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07264-1.754.754", "start_pos": 754, "end_pos": 754, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "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": "EYISRYEALRREKYSFLEGG", "down_seq": "KLLKFDNVPKRKAVTTTFDK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser754" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P07264-1.748.748", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07264-1.769.769", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P07264-1.771.771", "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": "P07264-1.769.769", "start_pos": 769, "end_pos": 769, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "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": "FLEGGSKLLKFDNVPKRKAV", "down_seq": "TTFDKVHQDW", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr769" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P07264-1.754.754", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07264-1.771.771", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07264-1.76.76", "start_pos": 76, "end_pos": 76, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RKVRRVDCTLATVDHNIPTE", "down_seq": "RKNFKSLDTFIKQTDSRLQV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser76" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07264-1.74.74", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07264-1.82.82", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07264-1.85.85", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07264-1.90.90", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P07264-1.92.92", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07264-1.771.771", "start_pos": 771, "end_pos": 771, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "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": "EGGSKLLKFDNVPKRKAVTT", "down_seq": "FDKVHQDW", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr771" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P07264-1.754.754", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07264-1.769.769", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07264-1.82.82", "start_pos": 82, "end_pos": 82, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "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": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "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": "DCTLATVDHNIPTESRKNFK", "down_seq": "LDTFIKQTDSRLQVKTLENN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser82" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P07264-1.74.74", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07264-1.76.76", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07264-1.85.85", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07264-1.90.90", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07264-1.92.92", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07264-1.85.85", "start_pos": 85, "end_pos": 85, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "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": "LATVDHNIPTESRKNFKSLD", "down_seq": "FIKQTDSRLQVKTLENNVKQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr85" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P07264-1.74.74", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P07264-1.76.76", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07264-1.82.82", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07264-1.90.90", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07264-1.92.92", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07264-1.90.90", "start_pos": 90, "end_pos": 90, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "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": "HNIPTESRKNFKSLDTFIKQ", "down_seq": "DSRLQVKTLENNVKQFGVPY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr90" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P07264-1.74.74", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P07264-1.76.76", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07264-1.82.82", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07264-1.85.85", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07264-1.92.92", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07264-1.92.92", "start_pos": 92, "end_pos": 92, "uniprot_canonical_ac": "P07264-1", "length": 779, "uniprot_id": "LEUC_YEAST", "protein_name": "3-isopropylmalate dehydratase", "refseq_ac": "NP_011506", "refseq_name": "3-isopropylmalate dehydratase LEU1", "gene_name": "LEU1", "gene_names_uniprotkb": "LEU1", "gene_names_refseq": "LEU1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07264", "url": "https://www.uniprot.org/uniprotkb/P07264" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IPTESRKNFKSLDTFIKQTD", "down_seq": "RLQVKTLENNVKQFGVPYFG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002977", "url": "https://www.yeastgenome.org/locus/S000002977" }, { "database": "iPTMnet", "id": "P07264", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07264" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser92" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "488", "end_pos": "488" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "754", "end_pos": "754" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P07264-1.74.74", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P07264-1.76.76", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P07264-1.82.82", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P07264-1.85.85", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07264-1.90.90", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07267-1.144.144", "start_pos": 144, "end_pos": 144, "uniprot_canonical_ac": "P07267-1", "length": 405, "uniprot_id": "CARP_YEAST", "protein_name": "Saccharopepsin", "refseq_ac": "NP_015171", "refseq_name": "proteinase A", "gene_name": "PEP4", "gene_names_uniprotkb": "PEP4; P2585; PHO9; PRA1", "gene_names_refseq": "PEP4; PHO9; PRA1; yscA", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07267", "url": "https://www.uniprot.org/uniprotkb/P07267" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "1G0V", "url": "https://www.rcsb.org/structure/1G0V", "database": "PDB", "categories": [ "3D Structure" ] }, { "id": "1G0V|A|67", "url": "", "database": "", "categories": [ "Other" ] }, { "id": "P07267", "url": "https://www.uniprot.org/uniprotkb/P07267", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "SLACFLHSKYDHEASSSYKA", "down_seq": "GTEFAIQYGTGSLEGYISQD", "glycosylation": [ { "glytoucan_ac": "G59065VC", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "N", "relation": "attached", "comment": "", "icn3d_view": { "label": "iCn3D", "url": "https://www.ncbi.nlm.nih.gov/Structure/icn3d/?bcifid=1G0V&bu=0&command=select+.A:67;+center+selection;+zoom+selection" }, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn144", "evidence": [ { "id": "1G0V", "database": "PDB", "url": "https://www.rcsb.org/structure/1G0V" } ] }, { "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": "Asn144", "evidence": [ { "id": "P07267", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P07267#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "144", "end_pos": "144" }, { "start_pos": "345", "end_pos": "345" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "294", "end_pos": "294" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "138", "end_pos": "138" }, { "start_pos": "139", "end_pos": "139" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P07267-1.138.138", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07267-1.139.139", "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": 2 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 1 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 1 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_n_linked_sites", "count": 1 }, { "field": "fuzzy_n_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_n_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "icn3d_view.label", "icn3d_view.url", "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", "icn3d_view.label", "icn3d_view.url", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported_with_glycan", "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": 1 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 1 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_n_linked_sites", "count": 1 }, { "field": "fuzzy_n_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_n_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "icn3d_view.label", "icn3d_view.url", "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": 0 } ], "sort_fields": [] } ] }, { "id": "P07267-1.345.345", "start_pos": 345, "end_pos": 345, "uniprot_canonical_ac": "P07267-1", "length": 405, "uniprot_id": "CARP_YEAST", "protein_name": "Saccharopepsin", "refseq_ac": "NP_015171", "refseq_name": "proteinase A", "gene_name": "PEP4", "gene_names_uniprotkb": "PEP4; P2585; PHO9; PRA1", "gene_names_refseq": "PEP4; PHO9; PRA1; yscA", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07267", "url": "https://www.uniprot.org/uniprotkb/P07267" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P07267", "url": "https://www.uniprot.org/uniprotkb/P07267", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "TLDCNTRDNLPDLIFNFNGY", "down_seq": "FTIGPYDYTLEVSGSCISAI", "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": "P07267", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P07267#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "144", "end_pos": "144" }, { "start_pos": "345", "end_pos": "345" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "294", "end_pos": "294" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "138", "end_pos": "138" }, { "start_pos": "139", "end_pos": "139" } ] } ], "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": "P07267-1.294.294", "start_pos": 294, "end_pos": 294, "uniprot_canonical_ac": "P07267-1", "length": 405, "uniprot_id": "CARP_YEAST", "protein_name": "Saccharopepsin", "refseq_ac": "NP_015171", "refseq_name": "proteinase A", "gene_name": "PEP4", "gene_names_uniprotkb": "PEP4; P2585; PHO9; PRA1", "gene_names_refseq": "PEP4; PHO9; PRA1; yscA", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07267", "url": "https://www.uniprot.org/uniprotkb/P07267" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Biogenesis of the yeast vacuole (lysosome). Active site mutation in the vacuolar aspartate proteinase yscA blocks maturation of vacuolar proteinases.", "journal": "FEBS letters", "date": "1991-11-18", "authors": "Rupp S, Hirsch H H, Wolf D H", "evidence": [ { "database": "UniProtKB", "id": "P07267", "url": "https://www.uniprot.org/uniprotkb/P07267" } ], "reference": [ { "type": "PubMed", "id": "1959673", "url": "https://glygen.org/publication/PubMed/1959673" } ] } ], "crossref": [ { "id": "P07267", "url": "https://www.uniprot.org/uniprotkb/P07267", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "1959673", "url": "https://glygen.org/publication/PubMed/1959673", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "FEGIGLGDEYAELESHGAAI", "down_seq": "TGTSLITLPSGLAEMINAEI", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "Inactivation.", "evidence": [ { "database": "UniProtKB", "id": "P07267", "url": "https://www.uniprot.org/uniprotkb/P07267" }, { "database": "PubMed", "id": "1959673", "url": "https://glygen.org/publication/PubMed/1959673" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "144", "end_pos": "144" }, { "start_pos": "345", "end_pos": "345" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "294", "end_pos": "294" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "138", "end_pos": "138" }, { "start_pos": "139", "end_pos": "139" } ] } ], "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": "P07267-1.138.138", "start_pos": 138, "end_pos": 138, "uniprot_canonical_ac": "P07267-1", "length": 405, "uniprot_id": "CARP_YEAST", "protein_name": "Saccharopepsin", "refseq_ac": "NP_015171", "refseq_name": "proteinase A", "gene_name": "PEP4", "gene_names_uniprotkb": "PEP4; P2585; PHO9; PRA1", "gene_names_refseq": "PEP4; PHO9; PRA1; yscA", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07267", "url": "https://www.uniprot.org/uniprotkb/P07267" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07267" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000006075", "url": "https://www.yeastgenome.org/locus/S000006075", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07267", "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": "PSNECGSLACFLHSKYDHEA", "down_seq": "SSYKANGTEFAIQYGTGSLE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006075", "url": "https://www.yeastgenome.org/locus/S000006075" }, { "database": "iPTMnet", "id": "P07267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07267" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser138" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "144", "end_pos": "144" }, { "start_pos": "345", "end_pos": "345" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "294", "end_pos": "294" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "138", "end_pos": "138" }, { "start_pos": "139", "end_pos": "139" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P07267-1.139.139", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07267-1.144.144", "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": "P07267-1.139.139", "start_pos": 139, "end_pos": 139, "uniprot_canonical_ac": "P07267-1", "length": 405, "uniprot_id": "CARP_YEAST", "protein_name": "Saccharopepsin", "refseq_ac": "NP_015171", "refseq_name": "proteinase A", "gene_name": "PEP4", "gene_names_uniprotkb": "PEP4; P2585; PHO9; PRA1", "gene_names_refseq": "PEP4; PHO9; PRA1; yscA", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07267", "url": "https://www.uniprot.org/uniprotkb/P07267" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07267" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000006075", "url": "https://www.yeastgenome.org/locus/S000006075", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07267", "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": "SNECGSLACFLHSKYDHEAS", "down_seq": "SYKANGTEFAIQYGTGSLEG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006075", "url": "https://www.yeastgenome.org/locus/S000006075" }, { "database": "iPTMnet", "id": "P07267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07267" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser139" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "144", "end_pos": "144" }, { "start_pos": "345", "end_pos": "345" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "294", "end_pos": "294" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "138", "end_pos": "138" }, { "start_pos": "139", "end_pos": "139" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P07267-1.138.138", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07267-1.144.144", "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": "P07269-1.101.101", "start_pos": 101, "end_pos": 101, "uniprot_canonical_ac": "P07269-1", "length": 559, "uniprot_id": "PHO2_YEAST", "protein_name": "Regulatory protein PHO2", "refseq_ac": "NP_010177", "refseq_name": "Pho2p", "gene_name": "PHO2", "gene_names_uniprotkb": "PHO2; BAS2; D2350; GRF10", "gene_names_refseq": "BAS2; GRF10; PHO2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07269", "url": "https://www.uniprot.org/uniprotkb/P07269" } ], "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": "RTRAKGEALDVLKRKFEINP", "down_seq": "PSLVERKKISDLIGMPEKNV", "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": "Thr101", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "101", "end_pos": "101" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "542", "end_pos": "542" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "72", "end_pos": "72" } ] } ], "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": "P07269-1.146.146", "start_pos": 146, "end_pos": 146, "uniprot_canonical_ac": "P07269-1", "length": 559, "uniprot_id": "PHO2_YEAST", "protein_name": "Regulatory protein PHO2", "refseq_ac": "NP_010177", "refseq_name": "Pho2p", "gene_name": "PHO2", "gene_names_uniprotkb": "PHO2; BAS2; D2350; GRF10", "gene_names_refseq": "BAS2; GRF10; PHO2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07269", "url": "https://www.uniprot.org/uniprotkb/P07269" } ], "common_name": "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": "P07269", "url": "https://www.uniprot.org/uniprotkb/P07269" }, { "database": "iPTMnet", "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269" } ], "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": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002264", "url": "https://www.yeastgenome.org/locus/S000002264", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269", "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": "QNRRAKLRKKQHGSNKDTIP", "down_seq": "SQSRDIANDYDRGSTDNNLV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002264", "url": "https://www.yeastgenome.org/locus/S000002264" }, { "database": "iPTMnet", "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser146" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "101", "end_pos": "101" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "542", "end_pos": "542" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P07269-1.147.147", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07269-1.160.160", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07269-1.147.147", "start_pos": 147, "end_pos": 147, "uniprot_canonical_ac": "P07269-1", "length": 559, "uniprot_id": "PHO2_YEAST", "protein_name": "Regulatory protein PHO2", "refseq_ac": "NP_010177", "refseq_name": "Pho2p", "gene_name": "PHO2", "gene_names_uniprotkb": "PHO2; BAS2; D2350; GRF10", "gene_names_refseq": "BAS2; GRF10; PHO2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07269", "url": "https://www.uniprot.org/uniprotkb/P07269" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002264", "url": "https://www.yeastgenome.org/locus/S000002264", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NRRAKLRKKQHGSNKDTIPS", "down_seq": "QSRDIANDYDRGSTDNNLVT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002264", "url": "https://www.yeastgenome.org/locus/S000002264" }, { "database": "iPTMnet", "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser147" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "101", "end_pos": "101" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "542", "end_pos": "542" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P07269-1.146.146", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07269-1.160.160", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07269-1.160.160", "start_pos": 160, "end_pos": 160, "uniprot_canonical_ac": "P07269-1", "length": 559, "uniprot_id": "PHO2_YEAST", "protein_name": "Regulatory protein PHO2", "refseq_ac": "NP_010177", "refseq_name": "Pho2p", "gene_name": "PHO2", "gene_names_uniprotkb": "PHO2; BAS2; D2350; GRF10", "gene_names_refseq": "BAS2; GRF10; PHO2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07269", "url": "https://www.uniprot.org/uniprotkb/P07269" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002264", "url": "https://www.yeastgenome.org/locus/S000002264", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NKDTIPSSQSRDIANDYDRG", "down_seq": "TDNNLVTTTSTSSIFHDEDL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002264", "url": "https://www.yeastgenome.org/locus/S000002264" }, { "database": "iPTMnet", "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser160" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "101", "end_pos": "101" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "542", "end_pos": "542" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P07269-1.146.146", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P07269-1.147.147", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07269-1.168.168", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07269-1.168.168", "start_pos": 168, "end_pos": 168, "uniprot_canonical_ac": "P07269-1", "length": 559, "uniprot_id": "PHO2_YEAST", "protein_name": "Regulatory protein PHO2", "refseq_ac": "NP_010177", "refseq_name": "Pho2p", "gene_name": "PHO2", "gene_names_uniprotkb": "PHO2; BAS2; D2350; GRF10", "gene_names_refseq": "BAS2; GRF10; PHO2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07269", "url": "https://www.uniprot.org/uniprotkb/P07269" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002264", "url": "https://www.yeastgenome.org/locus/S000002264", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269", "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": "QSRDIANDYDRGSTDNNLVT", "down_seq": "TSTSSIFHDEDLTFFDRIPL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002264", "url": "https://www.yeastgenome.org/locus/S000002264" }, { "database": "iPTMnet", "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr168" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "101", "end_pos": "101" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "542", "end_pos": "542" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P07269-1.160.160", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07269-1.230.230", "start_pos": 230, "end_pos": 230, "uniprot_canonical_ac": "P07269-1", "length": 559, "uniprot_id": "PHO2_YEAST", "protein_name": "Regulatory protein PHO2", "refseq_ac": "NP_010177", "refseq_name": "Pho2p", "gene_name": "PHO2", "gene_names_uniprotkb": "PHO2; BAS2; D2350; GRF10", "gene_names_refseq": "BAS2; GRF10; PHO2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07269", "url": "https://www.uniprot.org/uniprotkb/P07269" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Regulation of the yeast transcriptional factor PHO2 activity by phosphorylation.", "journal": "The Journal of biological chemistry", "date": "2000-10-13", "authors": "Liu C, Yang Z, Yang J, Xia Z, Ao S", "evidence": [ { "database": "iPTMnet", "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269" } ], "reference": [ { "type": "PubMed", "id": "10884387", "url": "https://glygen.org/publication/PubMed/10884387" } ] }, { "title": "Studies on the Potential Phosphorylation Sites of the Yeast PHO2 Factor.", "journal": "Sheng wu hua xue yu sheng wu wu li xue bao Acta biochimica et biophysica Sinica", "date": "1996", "authors": "Yang Zhi-Yang, Yang Jun, Ao Shi-Zhou", "evidence": [ { "database": "iPTMnet", "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269" } ], "reference": [ { "type": "PubMed", "id": "12232617", "url": "https://glygen.org/publication/PubMed/12232617" } ] }, { "title": "Analysis of Interaction between PHO4 and PHO2 Protein by Real Time BIA.", "journal": "Sheng wu hua xue yu sheng wu wu li xue bao Acta biochimica et biophysica Sinica", "date": "1999", "authors": "Xia Zan-Xian, Ao Shi-Zhou", "evidence": [ { "database": "iPTMnet", "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269" } ], "reference": [ { "type": "PubMed", "id": "12136204", "url": "https://glygen.org/publication/PubMed/12136204" } ] }, { "title": "Analysis of Activation Activity of Yeast PHO2, PHO4 Protein and Their Interaction.", "journal": "Sheng wu hua xue yu sheng wu wu li xue bao Acta biochimica et biophysica Sinica", "date": "1997", "authors": "Yang Jun, Wu Jian-Sheng, Ao Shi-Zhou", "evidence": [ { "database": "iPTMnet", "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269" } ], "reference": [ { "type": "PubMed", "id": "12219216", "url": "https://glygen.org/publication/PubMed/12219216" } ] } ], "crossref": [ { "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "10884387", "url": "https://glygen.org/publication/PubMed/10884387", "database": "PubMed", "categories": [ "Other" ] }, { "id": "12232617", "url": "https://glygen.org/publication/PubMed/12232617", "database": "PubMed", "categories": [ "Other" ] }, { "id": "12136204", "url": "https://glygen.org/publication/PubMed/12136204", "database": "PubMed", "categories": [ "Other" ] }, { "id": "12219216", "url": "https://glygen.org/publication/PubMed/12219216", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MKSGALQRRNFQSIKELRNL", "down_seq": "PIKINNIMSNATDLMVLISK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269" }, { "database": "PubMed", "id": "10884387", "url": "https://glygen.org/publication/PubMed/10884387" }, { "database": "PubMed", "id": "12232617", "url": "https://glygen.org/publication/PubMed/12232617" }, { "database": "PubMed", "id": "12136204", "url": "https://glygen.org/publication/PubMed/12136204" }, { "database": "PubMed", "id": "12219216", "url": "https://glygen.org/publication/PubMed/12219216" } ], "site_lbl": "Ser230" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "101", "end_pos": "101" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "542", "end_pos": "542" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07269-1.316.316", "start_pos": 316, "end_pos": 316, "uniprot_canonical_ac": "P07269-1", "length": 559, "uniprot_id": "PHO2_YEAST", "protein_name": "Regulatory protein PHO2", "refseq_ac": "NP_010177", "refseq_name": "Pho2p", "gene_name": "PHO2", "gene_names_uniprotkb": "PHO2; BAS2; D2350; GRF10", "gene_names_refseq": "BAS2; GRF10; PHO2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07269", "url": "https://www.uniprot.org/uniprotkb/P07269" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002264", "url": "https://www.yeastgenome.org/locus/S000002264", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269", "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": "NNTSDKNNSNTNNDDDNDDN", "down_seq": "NEDNDNSSEDKRNAKDNFGE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002264", "url": "https://www.yeastgenome.org/locus/S000002264" }, { "database": "iPTMnet", "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser316" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "101", "end_pos": "101" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "542", "end_pos": "542" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07269-1.517.517", "start_pos": 517, "end_pos": 517, "uniprot_canonical_ac": "P07269-1", "length": 559, "uniprot_id": "PHO2_YEAST", "protein_name": "Regulatory protein PHO2", "refseq_ac": "NP_010177", "refseq_name": "Pho2p", "gene_name": "PHO2", "gene_names_uniprotkb": "PHO2; BAS2; D2350; GRF10", "gene_names_refseq": "BAS2; GRF10; PHO2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07269", "url": "https://www.uniprot.org/uniprotkb/P07269" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002264", "url": "https://www.yeastgenome.org/locus/S000002264", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NSNNNHNANNEENHLAQEHL", "down_seq": "NDADIVANPNDHLLSLPTDS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002264", "url": "https://www.yeastgenome.org/locus/S000002264" }, { "database": "iPTMnet", "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser517" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "101", "end_pos": "101" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "542", "end_pos": "542" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07269-1.542.542", "start_pos": 542, "end_pos": 542, "uniprot_canonical_ac": "P07269-1", "length": 559, "uniprot_id": "PHO2_YEAST", "protein_name": "Regulatory protein PHO2", "refseq_ac": "NP_010177", "refseq_name": "Pho2p", "gene_name": "PHO2", "gene_names_uniprotkb": "PHO2; BAS2; D2350; GRF10", "gene_names_refseq": "BAS2; GRF10; PHO2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07269", "url": "https://www.uniprot.org/uniprotkb/P07269" } ], "common_name": "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": "P07269", "url": "https://www.uniprot.org/uniprotkb/P07269" }, { "database": "iPTMnet", "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P07269", "url": "https://www.uniprot.org/uniprotkb/P07269", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000002264", "url": "https://www.yeastgenome.org/locus/S000002264", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "IVANPNDHLLSLPTDSELPN", "down_seq": "PDFLKNTNELTDEHRWI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P07269", "url": "https://www.uniprot.org/uniprotkb/P07269" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269" }, { "database": "SGD", "id": "S000002264", "url": "https://www.yeastgenome.org/locus/S000002264" } ], "site_lbl": "Thr542" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "101", "end_pos": "101" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "542", "end_pos": "542" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "upstream", "id": "P07269-1.553.553", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07269-1.553.553", "start_pos": 553, "end_pos": 553, "uniprot_canonical_ac": "P07269-1", "length": 559, "uniprot_id": "PHO2_YEAST", "protein_name": "Regulatory protein PHO2", "refseq_ac": "NP_010177", "refseq_name": "Pho2p", "gene_name": "PHO2", "gene_names_uniprotkb": "PHO2; BAS2; D2350; GRF10", "gene_names_refseq": "BAS2; GRF10; PHO2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07269", "url": "https://www.uniprot.org/uniprotkb/P07269" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002264", "url": "https://www.yeastgenome.org/locus/S000002264", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269", "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": "LPTDSELPNTPDFLKNTNEL", "down_seq": "DEHRWI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002264", "url": "https://www.yeastgenome.org/locus/S000002264" }, { "database": "iPTMnet", "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr553" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "101", "end_pos": "101" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "542", "end_pos": "542" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P07269-1.542.542", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07269-1.6.6", "start_pos": 6, "end_pos": 6, "uniprot_canonical_ac": "P07269-1", "length": 559, "uniprot_id": "PHO2_YEAST", "protein_name": "Regulatory protein PHO2", "refseq_ac": "NP_010177", "refseq_name": "Pho2p", "gene_name": "PHO2", "gene_names_uniprotkb": "PHO2; BAS2; D2350; GRF10", "gene_names_refseq": "BAS2; GRF10; PHO2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07269", "url": "https://www.uniprot.org/uniprotkb/P07269" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002264", "url": "https://www.yeastgenome.org/locus/S000002264", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MMEEF", "down_seq": "YDHDFNTHFATDLDYLQHDQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002264", "url": "https://www.yeastgenome.org/locus/S000002264" }, { "database": "iPTMnet", "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser6" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "101", "end_pos": "101" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "542", "end_pos": "542" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07269-1.72.72", "start_pos": 72, "end_pos": 72, "uniprot_canonical_ac": "P07269-1", "length": 559, "uniprot_id": "PHO2_YEAST", "protein_name": "Regulatory protein PHO2", "refseq_ac": "NP_010177", "refseq_name": "Pho2p", "gene_name": "PHO2", "gene_names_uniprotkb": "PHO2; BAS2; D2350; GRF10", "gene_names_refseq": "BAS2; GRF10; PHO2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07269", "url": "https://www.uniprot.org/uniprotkb/P07269" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002264", "url": "https://www.yeastgenome.org/locus/S000002264", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QNLEHDHDQHTNDMSASSNA", "down_seq": "DSGPQRPKRTRAKGEALDVL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002264", "url": "https://www.yeastgenome.org/locus/S000002264" }, { "database": "iPTMnet", "id": "P07269", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07269" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser72" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "101", "end_pos": "101" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "542", "end_pos": "542" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07270-1.100.100", "start_pos": 100, "end_pos": 100, "uniprot_canonical_ac": "P07270-1", "length": 312, "uniprot_id": "PHO4_YEAST", "protein_name": "Phosphate system positive regulatory protein PHO4", "refseq_ac": "NP_116692", "refseq_name": "phosphate-sensing transcription factor PHO4", "gene_name": "PHO4", "gene_names_uniprotkb": "PHO4", "gene_names_refseq": "PHO4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Multi-site phosphorylation of Pho4 by the cyclin-CDK Pho80-Pho85 is semi-processive with site preference.", "journal": "Journal of molecular biology", "date": "2001-03-09", "authors": "Jeffery D A, Springer M, King D S, O'Shea E K", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "11237614", "url": "https://glygen.org/publication/PubMed/11237614" } ] }, { "title": "A quantitative results-driven approach to analyzing multisite protein phosphorylation: the phosphate-dependent phosphorylation profile of the transcription factor Pho4.", "journal": "Molecular & cellular proteomics : MCP", "date": "2006-11", "authors": "Zappacosta Francesca, Collingwood Therese S, Huddleston Michael J, Annan Roland S", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185" } ] }, { "title": "Regulation of PHO4 nuclear localization by the PHO80-PHO85 cyclin-CDK complex.", "journal": "Science (New York, N.Y.)", "date": "1996-01-12", "authors": "O'Neill E M, Kaffman A, Jolly E R, O'Shea E K", "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "8539622", "url": "https://glygen.org/publication/PubMed/8539622" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Roles of phosphorylation sites in regulating activity of the transcription factor Pho4.", "journal": "Science (New York, N.Y.)", "date": "1999-05-07", "authors": "Komeili A, O'Shea E K", "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "10320381", "url": "https://glygen.org/publication/PubMed/10320381" } ] } ], "crossref": [ { "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11237614", "url": "https://glygen.org/publication/PubMed/11237614", "database": "PubMed", "categories": [ "Other" ] }, { "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185", "database": "PubMed", "categories": [ "Other" ] }, { "id": "8539622", "url": "https://glygen.org/publication/PubMed/8539622", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "10320381", "url": "https://glygen.org/publication/PubMed/10320381", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AFELVEGMDMDWMMPSHAHH", "down_seq": "PATTATIKPRLLYSPLIHTQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P17157-1", "kinase_gene_name": "PHO85", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" }, { "database": "PubMed", "id": "11237614", "url": "https://glygen.org/publication/PubMed/11237614" }, { "database": "PubMed", "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185" }, { "database": "PubMed", "id": "8539622", "url": "https://glygen.org/publication/PubMed/8539622" } ], "site_lbl": "Ser100" }, { "kinase_uniprot_canonical_ac": "P20052-1", "kinase_gene_name": "PHO80", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" }, { "database": "PubMed", "id": "11237614", "url": "https://glygen.org/publication/PubMed/11237614" }, { "database": "PubMed", "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185" }, { "database": "PubMed", "id": "8539622", "url": "https://glygen.org/publication/PubMed/8539622" } ], "site_lbl": "Ser100" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine; by PHO85", "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" }, { "database": "SGD", "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "8539622", "url": "https://glygen.org/publication/PubMed/8539622" }, { "database": "PubMed", "id": "10320381", "url": "https://glygen.org/publication/PubMed/10320381" } ], "site_lbl": "Ser100" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "upstream", "id": "P07270-1.113.113", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07270-1.114.114", "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": 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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07270-1.113.113", "start_pos": 113, "end_pos": 113, "uniprot_canonical_ac": "P07270-1", "length": 312, "uniprot_id": "PHO4_YEAST", "protein_name": "Phosphate system positive regulatory protein PHO4", "refseq_ac": "NP_116692", "refseq_name": "phosphate-sensing transcription factor PHO4", "gene_name": "PHO4", "gene_names_uniprotkb": "PHO4", "gene_names_refseq": "PHO4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270", "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": "MPSHAHHSPATTATIKPRLL", "down_seq": "SPLIHTQSAVPVTISPNLVA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Tyr113" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P07270-1.100.100", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07270-1.114.114", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07270-1.126.126", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07270-1.128.128", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07270-1.114.114", "start_pos": 114, "end_pos": 114, "uniprot_canonical_ac": "P07270-1", "length": 312, "uniprot_id": "PHO4_YEAST", "protein_name": "Phosphate system positive regulatory protein PHO4", "refseq_ac": "NP_116692", "refseq_name": "phosphate-sensing transcription factor PHO4", "gene_name": "PHO4", "gene_names_uniprotkb": "PHO4", "gene_names_refseq": "PHO4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Multi-site phosphorylation of Pho4 by the cyclin-CDK Pho80-Pho85 is semi-processive with site preference.", "journal": "Journal of molecular biology", "date": "2001-03-09", "authors": "Jeffery D A, Springer M, King D S, O'Shea E K", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "11237614", "url": "https://glygen.org/publication/PubMed/11237614" } ] }, { "title": "A quantitative results-driven approach to analyzing multisite protein phosphorylation: the phosphate-dependent phosphorylation profile of the transcription factor Pho4.", "journal": "Molecular & cellular proteomics : MCP", "date": "2006-11", "authors": "Zappacosta Francesca, Collingwood Therese S, Huddleston Michael J, Annan Roland S", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185" } ] }, { "title": "Regulation of PHO4 nuclear localization by the PHO80-PHO85 cyclin-CDK complex.", "journal": "Science (New York, N.Y.)", "date": "1996-01-12", "authors": "O'Neill E M, Kaffman A, Jolly E R, O'Shea E K", "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "8539622", "url": "https://glygen.org/publication/PubMed/8539622" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "title": "Roles of phosphorylation sites in regulating activity of the transcription factor Pho4.", "journal": "Science (New York, N.Y.)", "date": "1999-05-07", "authors": "Komeili A, O'Shea E K", "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "10320381", "url": "https://glygen.org/publication/PubMed/10320381" } ] } ], "crossref": [ { "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11237614", "url": "https://glygen.org/publication/PubMed/11237614", "database": "PubMed", "categories": [ "Other" ] }, { "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185", "database": "PubMed", "categories": [ "Other" ] }, { "id": "8539622", "url": "https://glygen.org/publication/PubMed/8539622", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930", "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" ] }, { "id": "10320381", "url": "https://glygen.org/publication/PubMed/10320381", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PSHAHHSPATTATIKPRLLY", "down_seq": "PLIHTQSAVPVTISPNLVAT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P17157-1", "kinase_gene_name": "PHO85", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" }, { "database": "PubMed", "id": "11237614", "url": "https://glygen.org/publication/PubMed/11237614" }, { "database": "PubMed", "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185" }, { "database": "PubMed", "id": "8539622", "url": "https://glygen.org/publication/PubMed/8539622" } ], "site_lbl": "Ser114" }, { "kinase_uniprot_canonical_ac": "P20052-1", "kinase_gene_name": "PHO80", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" }, { "database": "PubMed", "id": "11237614", "url": "https://glygen.org/publication/PubMed/11237614" }, { "database": "PubMed", "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185" }, { "database": "PubMed", "id": "8539622", "url": "https://glygen.org/publication/PubMed/8539622" } ], "site_lbl": "Ser114" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine; by PHO85", "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" }, { "database": "SGD", "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" }, { "database": "PubMed", "id": "8539622", "url": "https://glygen.org/publication/PubMed/8539622" }, { "database": "PubMed", "id": "10320381", "url": "https://glygen.org/publication/PubMed/10320381" } ], "site_lbl": "Ser114" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P07270-1.100.100", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07270-1.113.113", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P07270-1.126.126", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07270-1.128.128", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07270-1.126.126", "start_pos": 126, "end_pos": 126, "uniprot_canonical_ac": "P07270-1", "length": 312, "uniprot_id": "PHO4_YEAST", "protein_name": "Phosphate system positive regulatory protein PHO4", "refseq_ac": "NP_116692", "refseq_name": "phosphate-sensing transcription factor PHO4", "gene_name": "PHO4", "gene_names_uniprotkb": "PHO4", "gene_names_refseq": "PHO4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270", "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": "TIKPRLLYSPLIHTQSAVPV", "down_seq": "ISPNLVATATSTTSANKVTK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr126" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P07270-1.113.113", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P07270-1.114.114", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07270-1.128.128", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07270-1.136.136", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07270-1.137.137", "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": "P07270-1.128.128", "start_pos": 128, "end_pos": 128, "uniprot_canonical_ac": "P07270-1", "length": 312, "uniprot_id": "PHO4_YEAST", "protein_name": "Phosphate system positive regulatory protein PHO4", "refseq_ac": "NP_116692", "refseq_name": "phosphate-sensing transcription factor PHO4", "gene_name": "PHO4", "gene_names_uniprotkb": "PHO4", "gene_names_refseq": "PHO4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Multi-site phosphorylation of Pho4 by the cyclin-CDK Pho80-Pho85 is semi-processive with site preference.", "journal": "Journal of molecular biology", "date": "2001-03-09", "authors": "Jeffery D A, Springer M, King D S, O'Shea E K", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "11237614", "url": "https://glygen.org/publication/PubMed/11237614" } ] }, { "title": "A quantitative results-driven approach to analyzing multisite protein phosphorylation: the phosphate-dependent phosphorylation profile of the transcription factor Pho4.", "journal": "Molecular & cellular proteomics : MCP", "date": "2006-11", "authors": "Zappacosta Francesca, Collingwood Therese S, Huddleston Michael J, Annan Roland S", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Regulation of PHO4 nuclear localization by the PHO80-PHO85 cyclin-CDK complex.", "journal": "Science (New York, N.Y.)", "date": "1996-01-12", "authors": "O'Neill E M, Kaffman A, Jolly E R, O'Shea E K", "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "8539622", "url": "https://glygen.org/publication/PubMed/8539622" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "title": "Roles of phosphorylation sites in regulating activity of the transcription factor Pho4.", "journal": "Science (New York, N.Y.)", "date": "1999-05-07", "authors": "Komeili A, O'Shea E K", "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "10320381", "url": "https://glygen.org/publication/PubMed/10320381" } ] } ], "crossref": [ { "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11237614", "url": "https://glygen.org/publication/PubMed/11237614", "database": "PubMed", "categories": [ "Other" ] }, { "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185", "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": "8539622", "url": "https://glygen.org/publication/PubMed/8539622", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930", "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" ] }, { "id": "10320381", "url": "https://glygen.org/publication/PubMed/10320381", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KPRLLYSPLIHTQSAVPVTI", "down_seq": "PNLVATATSTTSANKVTKNK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P17157-1", "kinase_gene_name": "PHO85", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" }, { "database": "PubMed", "id": "11237614", "url": "https://glygen.org/publication/PubMed/11237614" }, { "database": "PubMed", "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185" }, { "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": "8539622", "url": "https://glygen.org/publication/PubMed/8539622" } ], "site_lbl": "Ser128" }, { "kinase_uniprot_canonical_ac": "P20052-1", "kinase_gene_name": "PHO80", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" }, { "database": "PubMed", "id": "11237614", "url": "https://glygen.org/publication/PubMed/11237614" }, { "database": "PubMed", "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185" }, { "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": "8539622", "url": "https://glygen.org/publication/PubMed/8539622" } ], "site_lbl": "Ser128" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine; by PHO85", "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" }, { "database": "SGD", "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" }, { "database": "PubMed", "id": "8539622", "url": "https://glygen.org/publication/PubMed/8539622" }, { "database": "PubMed", "id": "10320381", "url": "https://glygen.org/publication/PubMed/10320381" } ], "site_lbl": "Ser128" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P07270-1.113.113", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P07270-1.114.114", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07270-1.126.126", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07270-1.136.136", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07270-1.137.137", "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": 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": "P07270-1.136.136", "start_pos": 136, "end_pos": 136, "uniprot_canonical_ac": "P07270-1", "length": 312, "uniprot_id": "PHO4_YEAST", "protein_name": "Phosphate system positive regulatory protein PHO4", "refseq_ac": "NP_116692", "refseq_name": "phosphate-sensing transcription factor PHO4", "gene_name": "PHO4", "gene_names_uniprotkb": "PHO4", "gene_names_refseq": "PHO4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270", "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": "LIHTQSAVPVTISPNLVATA", "down_seq": "STTSANKVTKNKSNSSPYLN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr136" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P07270-1.126.126", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07270-1.128.128", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07270-1.137.137", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07270-1.151.151", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P07270-1.152.152", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P07270-1.154.154", "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": "P07270-1.137.137", "start_pos": 137, "end_pos": 137, "uniprot_canonical_ac": "P07270-1", "length": 312, "uniprot_id": "PHO4_YEAST", "protein_name": "Phosphate system positive regulatory protein PHO4", "refseq_ac": "NP_116692", "refseq_name": "phosphate-sensing transcription factor PHO4", "gene_name": "PHO4", "gene_names_uniprotkb": "PHO4", "gene_names_refseq": "PHO4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270", "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": "IHTQSAVPVTISPNLVATAT", "down_seq": "TTSANKVTKNKSNSSPYLNK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser137" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P07270-1.126.126", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P07270-1.128.128", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07270-1.136.136", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07270-1.151.151", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07270-1.152.152", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P07270-1.154.154", "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": "P07270-1.151.151", "start_pos": 151, "end_pos": 151, "uniprot_canonical_ac": "P07270-1", "length": 312, "uniprot_id": "PHO4_YEAST", "protein_name": "Phosphate system positive regulatory protein PHO4", "refseq_ac": "NP_116692", "refseq_name": "phosphate-sensing transcription factor PHO4", "gene_name": "PHO4", "gene_names_uniprotkb": "PHO4", "gene_names_refseq": "PHO4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A quantitative results-driven approach to analyzing multisite protein phosphorylation: the phosphate-dependent phosphorylation profile of the transcription factor Pho4.", "journal": "Molecular & cellular proteomics : MCP", "date": "2006-11", "authors": "Zappacosta Francesca, Collingwood Therese S, Huddleston Michael J, Annan Roland S", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930", "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": "LVATATSTTSANKVTKNKSN", "down_seq": "SPYLNKRRGKPGPDSATSLF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" }, { "database": "PubMed", "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185" }, { "database": "SGD", "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser151" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P07270-1.136.136", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P07270-1.137.137", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07270-1.152.152", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07270-1.154.154", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07270-1.166.166", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P07270-1.168.168", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P07270-1.169.169", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07270-1.152.152", "start_pos": 152, "end_pos": 152, "uniprot_canonical_ac": "P07270-1", "length": 312, "uniprot_id": "PHO4_YEAST", "protein_name": "Phosphate system positive regulatory protein PHO4", "refseq_ac": "NP_116692", "refseq_name": "phosphate-sensing transcription factor PHO4", "gene_name": "PHO4", "gene_names_uniprotkb": "PHO4", "gene_names_refseq": "PHO4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Multi-site phosphorylation of Pho4 by the cyclin-CDK Pho80-Pho85 is semi-processive with site preference.", "journal": "Journal of molecular biology", "date": "2001-03-09", "authors": "Jeffery D A, Springer M, King D S, O'Shea E K", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "11237614", "url": "https://glygen.org/publication/PubMed/11237614" } ] }, { "title": "A quantitative results-driven approach to analyzing multisite protein phosphorylation: the phosphate-dependent phosphorylation profile of the transcription factor Pho4.", "journal": "Molecular & cellular proteomics : MCP", "date": "2006-11", "authors": "Zappacosta Francesca, Collingwood Therese S, Huddleston Michael J, Annan Roland S", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Regulation of PHO4 nuclear localization by the PHO80-PHO85 cyclin-CDK complex.", "journal": "Science (New York, N.Y.)", "date": "1996-01-12", "authors": "O'Neill E M, Kaffman A, Jolly E R, O'Shea E K", "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "8539622", "url": "https://glygen.org/publication/PubMed/8539622" } ] }, { "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "title": "Roles of phosphorylation sites in regulating activity of the transcription factor Pho4.", "journal": "Science (New York, N.Y.)", "date": "1999-05-07", "authors": "Komeili A, O'Shea E K", "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "10320381", "url": "https://glygen.org/publication/PubMed/10320381" } ] } ], "crossref": [ { "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11237614", "url": "https://glygen.org/publication/PubMed/11237614", "database": "PubMed", "categories": [ "Other" ] }, { "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185", "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": "8539622", "url": "https://glygen.org/publication/PubMed/8539622", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930", "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" ] }, { "id": "10320381", "url": "https://glygen.org/publication/PubMed/10320381", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VATATSTTSANKVTKNKSNS", "down_seq": "PYLNKRRGKPGPDSATSLFE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P17157-1", "kinase_gene_name": "PHO85", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" }, { "database": "PubMed", "id": "11237614", "url": "https://glygen.org/publication/PubMed/11237614" }, { "database": "PubMed", "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185" }, { "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": "8539622", "url": "https://glygen.org/publication/PubMed/8539622" } ], "site_lbl": "Ser152" }, { "kinase_uniprot_canonical_ac": "P20052-1", "kinase_gene_name": "PHO80", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" }, { "database": "PubMed", "id": "11237614", "url": "https://glygen.org/publication/PubMed/11237614" }, { "database": "PubMed", "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185" }, { "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": "8539622", "url": "https://glygen.org/publication/PubMed/8539622" } ], "site_lbl": "Ser152" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine; by PHO85", "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" }, { "database": "SGD", "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" }, { "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": "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" }, { "database": "PubMed", "id": "8539622", "url": "https://glygen.org/publication/PubMed/8539622" }, { "database": "PubMed", "id": "10320381", "url": "https://glygen.org/publication/PubMed/10320381" } ], "site_lbl": "Ser152" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P07270-1.136.136", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P07270-1.137.137", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07270-1.151.151", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07270-1.154.154", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07270-1.166.166", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P07270-1.168.168", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P07270-1.169.169", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 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": 14 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07270-1.154.154", "start_pos": 154, "end_pos": 154, "uniprot_canonical_ac": "P07270-1", "length": 312, "uniprot_id": "PHO4_YEAST", "protein_name": "Phosphate system positive regulatory protein PHO4", "refseq_ac": "NP_116692", "refseq_name": "phosphate-sensing transcription factor PHO4", "gene_name": "PHO4", "gene_names_uniprotkb": "PHO4", "gene_names_refseq": "PHO4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270", "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": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "TATSTTSANKVTKNKSNSSP", "down_seq": "LNKRRGKPGPDSATSLFELP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" }, { "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": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Tyr154" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P07270-1.136.136", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P07270-1.137.137", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07270-1.151.151", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07270-1.152.152", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P07270-1.166.166", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07270-1.168.168", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07270-1.169.169", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07270-1.166.166", "start_pos": 166, "end_pos": 166, "uniprot_canonical_ac": "P07270-1", "length": 312, "uniprot_id": "PHO4_YEAST", "protein_name": "Phosphate system positive regulatory protein PHO4", "refseq_ac": "NP_116692", "refseq_name": "phosphate-sensing transcription factor PHO4", "gene_name": "PHO4", "gene_names_uniprotkb": "PHO4", "gene_names_refseq": "PHO4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A quantitative results-driven approach to analyzing multisite protein phosphorylation: the phosphate-dependent phosphorylation profile of the transcription factor Pho4.", "journal": "Molecular & cellular proteomics : MCP", "date": "2006-11", "authors": "Zappacosta Francesca, Collingwood Therese S, Huddleston Michael J, Annan Roland S", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930", "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": "KNKSNSSPYLNKRRGKPGPD", "down_seq": "ATSLFELPDSVIPTPKPKPK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" }, { "database": "PubMed", "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185" }, { "database": "SGD", "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser166" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P07270-1.151.151", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P07270-1.152.152", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P07270-1.154.154", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07270-1.168.168", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07270-1.169.169", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07270-1.168.168", "start_pos": 168, "end_pos": 168, "uniprot_canonical_ac": "P07270-1", "length": 312, "uniprot_id": "PHO4_YEAST", "protein_name": "Phosphate system positive regulatory protein PHO4", "refseq_ac": "NP_116692", "refseq_name": "phosphate-sensing transcription factor PHO4", "gene_name": "PHO4", "gene_names_uniprotkb": "PHO4", "gene_names_refseq": "PHO4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270", "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": "KSNSSPYLNKRRGKPGPDSA", "down_seq": "SLFELPDSVIPTPKPKPKPK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr168" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P07270-1.151.151", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P07270-1.152.152", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P07270-1.154.154", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07270-1.166.166", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07270-1.169.169", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07270-1.169.169", "start_pos": 169, "end_pos": 169, "uniprot_canonical_ac": "P07270-1", "length": 312, "uniprot_id": "PHO4_YEAST", "protein_name": "Phosphate system positive regulatory protein PHO4", "refseq_ac": "NP_116692", "refseq_name": "phosphate-sensing transcription factor PHO4", "gene_name": "PHO4", "gene_names_uniprotkb": "PHO4", "gene_names_refseq": "PHO4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SNSSPYLNKRRGKPGPDSAT", "down_seq": "LFELPDSVIPTPKPKPKPKQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser169" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P07270-1.151.151", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P07270-1.152.152", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P07270-1.154.154", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07270-1.166.166", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07270-1.168.168", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07270-1.204.204", "start_pos": 204, "end_pos": 204, "uniprot_canonical_ac": "P07270-1", "length": 312, "uniprot_id": "PHO4_YEAST", "protein_name": "Phosphate system positive regulatory protein PHO4", "refseq_ac": "NP_116692", "refseq_name": "phosphate-sensing transcription factor PHO4", "gene_name": "PHO4", "gene_names_uniprotkb": "PHO4", "gene_names_refseq": "PHO4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" } ], "common_name": "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": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930", "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": "KPKPKQYPKVILPSNSTRRV", "down_seq": "PVTAKTSSSAEGVVVASESP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930" }, { "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": "Ser204" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "upstream", "id": "P07270-1.223.223", "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": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07270-1.223.223", "start_pos": 223, "end_pos": 223, "uniprot_canonical_ac": "P07270-1", "length": 312, "uniprot_id": "PHO4_YEAST", "protein_name": "Phosphate system positive regulatory protein PHO4", "refseq_ac": "NP_116692", "refseq_name": "phosphate-sensing transcription factor PHO4", "gene_name": "PHO4", "gene_names_uniprotkb": "PHO4", "gene_names_refseq": "PHO4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Multi-site phosphorylation of Pho4 by the cyclin-CDK Pho80-Pho85 is semi-processive with site preference.", "journal": "Journal of molecular biology", "date": "2001-03-09", "authors": "Jeffery D A, Springer M, King D S, O'Shea E K", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "11237614", "url": "https://glygen.org/publication/PubMed/11237614" } ] }, { "title": "Partially phosphorylated Pho4 activates transcription of a subset of phosphate-responsive genes.", "journal": "PLoS biology", "date": "2003-11", "authors": "Springer Michael, Wykoff Dennis D, Miller Nicole, O'Shea Erin K", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "14624238", "url": "https://glygen.org/publication/PubMed/14624238" } ] }, { "title": "A quantitative results-driven approach to analyzing multisite protein phosphorylation: the phosphate-dependent phosphorylation profile of the transcription factor Pho4.", "journal": "Molecular & cellular proteomics : MCP", "date": "2006-11", "authors": "Zappacosta Francesca, Collingwood Therese S, Huddleston Michael J, Annan Roland S", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185" } ] }, { "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": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Regulation of PHO4 nuclear localization by the PHO80-PHO85 cyclin-CDK complex.", "journal": "Science (New York, N.Y.)", "date": "1996-01-12", "authors": "O'Neill E M, Kaffman A, Jolly E R, O'Shea E K", "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "8539622", "url": "https://glygen.org/publication/PubMed/8539622" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "title": "Roles of phosphorylation sites in regulating activity of the transcription factor Pho4.", "journal": "Science (New York, N.Y.)", "date": "1999-05-07", "authors": "Komeili A, O'Shea E K", "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "10320381", "url": "https://glygen.org/publication/PubMed/10320381" } ] } ], "crossref": [ { "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11237614", "url": "https://glygen.org/publication/PubMed/11237614", "database": "PubMed", "categories": [ "Other" ] }, { "id": "14624238", "url": "https://glygen.org/publication/PubMed/14624238", "database": "PubMed", "categories": [ "Other" ] }, { "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185", "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": "8539622", "url": "https://glygen.org/publication/PubMed/8539622", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930", "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" ] }, { "id": "10320381", "url": "https://glygen.org/publication/PubMed/10320381", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VSPVTAKTSSSAEGVVVASE", "down_seq": "PVIAPHGSSHSRSLSKRRSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P17157-1", "kinase_gene_name": "PHO85", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" }, { "database": "PubMed", "id": "11237614", "url": "https://glygen.org/publication/PubMed/11237614" }, { "database": "PubMed", "id": "14624238", "url": "https://glygen.org/publication/PubMed/14624238" }, { "database": "PubMed", "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185" }, { "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": "8539622", "url": "https://glygen.org/publication/PubMed/8539622" } ], "site_lbl": "Ser223" }, { "kinase_uniprot_canonical_ac": "P20052-1", "kinase_gene_name": "PHO80", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" }, { "database": "PubMed", "id": "11237614", "url": "https://glygen.org/publication/PubMed/11237614" }, { "database": "PubMed", "id": "14624238", "url": "https://glygen.org/publication/PubMed/14624238" }, { "database": "PubMed", "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185" }, { "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": "8539622", "url": "https://glygen.org/publication/PubMed/8539622" } ], "site_lbl": "Ser223" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine; by PHO85", "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" }, { "database": "SGD", "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "8539622", "url": "https://glygen.org/publication/PubMed/8539622" }, { "database": "PubMed", "id": "10320381", "url": "https://glygen.org/publication/PubMed/10320381" } ], "site_lbl": "Ser223" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P07270-1.204.204", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P07270-1.242.242", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07270-1.243.243", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 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": 10 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07270-1.242.242", "start_pos": 242, "end_pos": 242, "uniprot_canonical_ac": "P07270-1", "length": 312, "uniprot_id": "PHO4_YEAST", "protein_name": "Phosphate system positive regulatory protein PHO4", "refseq_ac": "NP_116692", "refseq_name": "phosphate-sensing transcription factor PHO4", "gene_name": "PHO4", "gene_names_uniprotkb": "PHO4", "gene_names_refseq": "PHO4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" } ], "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": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "A quantitative results-driven approach to analyzing multisite protein phosphorylation: the phosphate-dependent phosphorylation profile of the transcription factor Pho4.", "journal": "Molecular & cellular proteomics : MCP", "date": "2006-11", "authors": "Zappacosta Francesca, Collingwood Therese S, Huddleston Michael J, Annan Roland S", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185" } ] }, { "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Knockout of the Hmt1p Arginine Methyltransferase in Saccharomyces cerevisiae Leads to the Dysregulation of Phosphate-associated Genes and Processes.", "journal": "Molecular & cellular proteomics : MCP", "date": "2018-12", "authors": "Chia Samantha Z, Lai Yu-Wen, Yagoub Daniel, Lev Sophie, Hamey Joshua J, Pang Chi Nam Ignatius, Desmarini Desmarini, Chen Zhiliang, Djordjevic Julianne T, Erce Melissa A, Hart-Smith Gene, Wilkins Marc R", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "30206180", "url": "https://glygen.org/publication/PubMed/30206180" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930", "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": "30206180", "url": "https://glygen.org/publication/PubMed/30206180", "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": "ESPVIAPHGSSHSRSLSKRR", "down_seq": "SGALVDDDKRESHKHAEQAR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" }, { "database": "PubMed", "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930" }, { "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": "30206180", "url": "https://glygen.org/publication/PubMed/30206180" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser242" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P07270-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07270-1.243.243", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 14 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07270-1.243.243", "start_pos": 243, "end_pos": 243, "uniprot_canonical_ac": "P07270-1", "length": 312, "uniprot_id": "PHO4_YEAST", "protein_name": "Phosphate system positive regulatory protein PHO4", "refseq_ac": "NP_116692", "refseq_name": "phosphate-sensing transcription factor PHO4", "gene_name": "PHO4", "gene_names_uniprotkb": "PHO4", "gene_names_refseq": "PHO4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" } ], "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": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "A quantitative results-driven approach to analyzing multisite protein phosphorylation: the phosphate-dependent phosphorylation profile of the transcription factor Pho4.", "journal": "Molecular & cellular proteomics : MCP", "date": "2006-11", "authors": "Zappacosta Francesca, Collingwood Therese S, Huddleston Michael J, Annan Roland S", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185" } ] }, { "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Knockout of the Hmt1p Arginine Methyltransferase in Saccharomyces cerevisiae Leads to the Dysregulation of Phosphate-associated Genes and Processes.", "journal": "Molecular & cellular proteomics : MCP", "date": "2018-12", "authors": "Chia Samantha Z, Lai Yu-Wen, Yagoub Daniel, Lev Sophie, Hamey Joshua J, Pang Chi Nam Ignatius, Desmarini Desmarini, Chen Zhiliang, Djordjevic Julianne T, Erce Melissa A, Hart-Smith Gene, Wilkins Marc R", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "30206180", "url": "https://glygen.org/publication/PubMed/30206180" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30206180", "url": "https://glygen.org/publication/PubMed/30206180", "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": "SPVIAPHGSSHSRSLSKRRS", "down_seq": "GALVDDDKRESHKHAEQARR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" }, { "database": "PubMed", "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185" }, { "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "30206180", "url": "https://glygen.org/publication/PubMed/30206180" }, { "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": "Ser243" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07270-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07270-1.242.242", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 13 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07270-1.311.311", "start_pos": 311, "end_pos": 311, "uniprot_canonical_ac": "P07270-1", "length": 312, "uniprot_id": "PHO4_YEAST", "protein_name": "Phosphate system positive regulatory protein PHO4", "refseq_ac": "NP_116692", "refseq_name": "phosphate-sensing transcription factor PHO4", "gene_name": "PHO4", "gene_names_uniprotkb": "PHO4", "gene_names_refseq": "PHO4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" } ], "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": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270", "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": "SKATTVEAACRYIRHLQQNV", "down_seq": "", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser311" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P07270-1.312.312", "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": "P07270-1.312.312", "start_pos": 312, "end_pos": 312, "uniprot_canonical_ac": "P07270-1", "length": 312, "uniprot_id": "PHO4_YEAST", "protein_name": "Phosphate system positive regulatory protein PHO4", "refseq_ac": "NP_116692", "refseq_name": "phosphate-sensing transcription factor PHO4", "gene_name": "PHO4", "gene_names_uniprotkb": "PHO4", "gene_names_refseq": "PHO4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270", "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": "KATTVEAACRYIRHLQQNVS", "down_seq": "", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930" }, { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr312" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P07270-1.311.311", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07270-1.4.4", "start_pos": 4, "end_pos": 4, "uniprot_canonical_ac": "P07270-1", "length": 312, "uniprot_id": "PHO4_YEAST", "protein_name": "Phosphate system positive regulatory protein PHO4", "refseq_ac": "NP_116692", "refseq_name": "phosphate-sensing transcription factor PHO4", "gene_name": "PHO4", "gene_names_uniprotkb": "PHO4", "gene_names_refseq": "PHO4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A quantitative results-driven approach to analyzing multisite protein phosphorylation: the phosphate-dependent phosphorylation profile of the transcription factor Pho4.", "journal": "Molecular & cellular proteomics : MCP", "date": "2006-11", "authors": "Zappacosta Francesca, Collingwood Therese S, Huddleston Michael J, Annan Roland S", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185" } ] } ], "crossref": [ { "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "MGR", "down_seq": "TSEGIHGFVDDLEPKSSILD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" }, { "database": "PubMed", "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185" } ], "site_lbl": "Thr4" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P07270-1.5.5", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07270-1.6.6", "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": "P07270-1.5.5", "start_pos": 5, "end_pos": 5, "uniprot_canonical_ac": "P07270-1", "length": 312, "uniprot_id": "PHO4_YEAST", "protein_name": "Phosphate system positive regulatory protein PHO4", "refseq_ac": "NP_116692", "refseq_name": "phosphate-sensing transcription factor PHO4", "gene_name": "PHO4", "gene_names_uniprotkb": "PHO4", "gene_names_refseq": "PHO4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A quantitative results-driven approach to analyzing multisite protein phosphorylation: the phosphate-dependent phosphorylation profile of the transcription factor Pho4.", "journal": "Molecular & cellular proteomics : MCP", "date": "2006-11", "authors": "Zappacosta Francesca, Collingwood Therese S, Huddleston Michael J, Annan Roland S", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185" } ] } ], "crossref": [ { "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "MGRT", "down_seq": "SEGIHGFVDDLEPKSSILDK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" }, { "database": "PubMed", "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185" } ], "site_lbl": "Thr5" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P07270-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07270-1.6.6", "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": "P07270-1.6.6", "start_pos": 6, "end_pos": 6, "uniprot_canonical_ac": "P07270-1", "length": 312, "uniprot_id": "PHO4_YEAST", "protein_name": "Phosphate system positive regulatory protein PHO4", "refseq_ac": "NP_116692", "refseq_name": "phosphate-sensing transcription factor PHO4", "gene_name": "PHO4", "gene_names_uniprotkb": "PHO4", "gene_names_refseq": "PHO4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07270", "url": "https://www.uniprot.org/uniprotkb/P07270" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A quantitative results-driven approach to analyzing multisite protein phosphorylation: the phosphate-dependent phosphorylation profile of the transcription factor Pho4.", "journal": "Molecular & cellular proteomics : MCP", "date": "2006-11", "authors": "Zappacosta Francesca, Collingwood Therese S, Huddleston Michael J, Annan Roland S", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930", "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": "MGRTT", "down_seq": "EGIHGFVDDLEPKSSILDKV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07270", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07270" }, { "database": "PubMed", "id": "16825185", "url": "https://glygen.org/publication/PubMed/16825185" }, { "database": "SGD", "id": "S000001930", "url": "https://www.yeastgenome.org/locus/S000001930" }, { "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": "100", "end_pos": "100" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07270-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07270-1.5.5", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07271-1.1.1", "start_pos": 1, "end_pos": 1, "uniprot_canonical_ac": "P07271-1", "length": 859, "uniprot_id": "PIF1_YEAST", "protein_name": "ATP-dependent DNA helicase PIF1", "refseq_ac": "NP_013650", "refseq_name": "DNA helicase PIF1", "gene_name": "PIF1", "gene_names_uniprotkb": "PIF1; TST1; YM9958.01C", "gene_names_refseq": "PIF1; TST1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The saccharomyces PIF1 DNA helicase inhibits telomere elongation and de novo telomere formation.", "journal": "Cell", "date": "1994-01-14", "authors": "Schulz V P, Zakian V A", "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" } ], "reference": [ { "type": "PubMed", "id": "8287473", "url": "https://glygen.org/publication/PubMed/8287473" } ] } ], "crossref": [ { "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "8287473", "url": "https://glygen.org/publication/PubMed/8287473", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "M", "start_aa": "M", "up_seq": "", "down_seq": "PKWIRSTLNHIIPRRPFICS", "mutagenesis": [ { "sequence_org": "M", "sequence_mut": "A", "comment": "In PIF1-m1; loss of mitochondrial function.", "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" }, { "database": "PubMed", "id": "8287473", "url": "https://glygen.org/publication/PubMed/8287473" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1", "end_pos": "1" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "40", "end_pos": "40" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "589", "end_pos": "589" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "737", "end_pos": "737" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "803", "end_pos": "803" } ] } ], "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": "P07271-1.264.264", "start_pos": 264, "end_pos": 264, "uniprot_canonical_ac": "P07271-1", "length": 859, "uniprot_id": "PIF1_YEAST", "protein_name": "ATP-dependent DNA helicase PIF1", "refseq_ac": "NP_013650", "refseq_name": "DNA helicase PIF1", "gene_name": "PIF1", "gene_names_uniprotkb": "PIF1; TST1; YM9958.01C", "gene_names_refseq": "PIF1; TST1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Pif1p helicase, a catalytic inhibitor of telomerase in yeast.", "journal": "Science (New York, N.Y.)", "date": "2000", "authors": "Zhou J, Monson EK, Teng SC, Schulz VP, Zakian VA", "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" } ], "reference": [ { "type": "PubMed", "id": "10926538", "url": "https://glygen.org/publication/PubMed/10926538" } ] }, { "title": "The absence of Top3 reveals an interaction between the Sgs1 and Pif1 DNA helicases in Saccharomyces cerevisiae.", "journal": "Genetics", "date": "2006-10", "authors": "Wagner Marisa, Price Gavrielle, Rothstein Rodney", "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" } ], "reference": [ { "type": "PubMed", "id": "16816432", "url": "https://glygen.org/publication/PubMed/16816432" } ] }, { "title": "The yeast Pif1p helicase removes telomerase from telomeric DNA.", "journal": "Nature", "date": "2005-11-03", "authors": "Boul\u00e9 Jean-Baptiste, Vega Leticia R, Zakian Virginia A", "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" } ], "reference": [ { "type": "PubMed", "id": "16121131", "url": "https://glygen.org/publication/PubMed/16121131" } ] } ], "crossref": [ { "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "10926538", "url": "https://glygen.org/publication/PubMed/10926538", "database": "PubMed", "categories": [ "Other" ] }, { "id": "16816432", "url": "https://glygen.org/publication/PubMed/16816432", "database": "PubMed", "categories": [ "Other" ] }, { "id": "16121131", "url": "https://glygen.org/publication/PubMed/16121131", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "IIKLAENGHNIFYTGSAGTG", "down_seq": "SILLREMIKVLKGIYGRENV", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "Abolishes helicase activity resulting in elongated telomeres; binds normally to DNA substrates.", "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" }, { "database": "PubMed", "id": "10926538", "url": "https://glygen.org/publication/PubMed/10926538" }, { "database": "PubMed", "id": "16816432", "url": "https://glygen.org/publication/PubMed/16816432" }, { "database": "PubMed", "id": "16121131", "url": "https://glygen.org/publication/PubMed/16121131" } ] }, { "sequence_org": "K", "sequence_mut": "R", "comment": "Abolishes helicase activity resulting in elongated telomeres; binds normally to DNA substrates.", "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" }, { "database": "PubMed", "id": "10926538", "url": "https://glygen.org/publication/PubMed/10926538" }, { "database": "PubMed", "id": "16816432", "url": "https://glygen.org/publication/PubMed/16816432" }, { "database": "PubMed", "id": "16121131", "url": "https://glygen.org/publication/PubMed/16121131" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1", "end_pos": "1" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "40", "end_pos": "40" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "589", "end_pos": "589" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "737", "end_pos": "737" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "803", "end_pos": "803" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07271-1.40.40", "start_pos": 40, "end_pos": 40, "uniprot_canonical_ac": "P07271-1", "length": 859, "uniprot_id": "PIF1_YEAST", "protein_name": "ATP-dependent DNA helicase PIF1", "refseq_ac": "NP_013650", "refseq_name": "DNA helicase PIF1", "gene_name": "PIF1", "gene_names_uniprotkb": "PIF1; TST1; YM9958.01C", "gene_names_refseq": "PIF1; TST1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The saccharomyces PIF1 DNA helicase inhibits telomere elongation and de novo telomere formation.", "journal": "Cell", "date": "1994-01-14", "authors": "Schulz V P, Zakian V A", "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" } ], "reference": [ { "type": "PubMed", "id": "8287473", "url": "https://glygen.org/publication/PubMed/8287473" } ] } ], "crossref": [ { "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "8287473", "url": "https://glygen.org/publication/PubMed/8287473", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "M", "start_aa": "M", "up_seq": "CSFNSFLLLKNVSHAKLSFS", "down_seq": "SSRGFRSNNFIQAQLKHPSI", "mutagenesis": [ { "sequence_org": "M", "sequence_mut": "A", "comment": "In PIF1-m2; loss of nuclear function.", "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" }, { "database": "PubMed", "id": "8287473", "url": "https://glygen.org/publication/PubMed/8287473" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1", "end_pos": "1" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "40", "end_pos": "40" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "589", "end_pos": "589" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "737", "end_pos": "737" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "803", "end_pos": "803" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "upstream", "id": "P07271-1.47.47", "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": "P07271-1.143.143", "start_pos": 143, "end_pos": 143, "uniprot_canonical_ac": "P07271-1", "length": 859, "uniprot_id": "PIF1_YEAST", "protein_name": "ATP-dependent DNA helicase PIF1", "refseq_ac": "NP_013650", "refseq_name": "DNA helicase PIF1", "gene_name": "PIF1", "gene_names_uniprotkb": "PIF1; TST1; YM9958.01C", "gene_names_refseq": "PIF1; TST1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SWNDMFKPSIIQPPQLISEN", "down_seq": "FDQSSQKKSRSTGFKNPLRP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526" }, { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser143" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1", "end_pos": "1" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "40", "end_pos": "40" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "589", "end_pos": "589" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "737", "end_pos": "737" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "803", "end_pos": "803" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P07271-1.148.148", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07271-1.148.148", "start_pos": 148, "end_pos": 148, "uniprot_canonical_ac": "P07271-1", "length": 859, "uniprot_id": "PIF1_YEAST", "protein_name": "ATP-dependent DNA helicase PIF1", "refseq_ac": "NP_013650", "refseq_name": "DNA helicase PIF1", "gene_name": "PIF1", "gene_names_uniprotkb": "PIF1; TST1; YM9958.01C", "gene_names_refseq": "PIF1; TST1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FKPSIIQPPQLISENSFDQS", "down_seq": "QKKSRSTGFKNPLRPALKKE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526" }, { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser148" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1", "end_pos": "1" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "40", "end_pos": "40" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "589", "end_pos": "589" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "737", "end_pos": "737" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "803", "end_pos": "803" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P07271-1.143.143", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07271-1.169.169", "start_pos": 169, "end_pos": 169, "uniprot_canonical_ac": "P07271-1", "length": 859, "uniprot_id": "PIF1_YEAST", "protein_name": "ATP-dependent DNA helicase PIF1", "refseq_ac": "NP_013650", "refseq_name": "DNA helicase PIF1", "gene_name": "PIF1", "gene_names_uniprotkb": "PIF1; TST1; YM9958.01C", "gene_names_refseq": "PIF1; TST1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" }, { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "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": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "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": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" }, { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "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": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "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": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271", "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": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526", "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": "QKKSRSTGFKNPLRPALKKE", "down_seq": "SFDELQNNSISQERSLEMIN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" }, { "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": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser169" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1", "end_pos": "1" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "40", "end_pos": "40" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "589", "end_pos": "589" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "737", "end_pos": "737" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "803", "end_pos": "803" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P07271-1.170.170", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07271-1.180.180", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07271-1.184.184", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07271-1.170.170", "start_pos": 170, "end_pos": 170, "uniprot_canonical_ac": "P07271-1", "length": 859, "uniprot_id": "PIF1_YEAST", "protein_name": "ATP-dependent DNA helicase PIF1", "refseq_ac": "NP_013650", "refseq_name": "DNA helicase PIF1", "gene_name": "PIF1", "gene_names_uniprotkb": "PIF1; TST1; YM9958.01C", "gene_names_refseq": "PIF1; TST1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" } ], "common_name": "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": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" }, { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "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": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "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": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "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": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "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": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526", "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": "KKSRSTGFKNPLRPALKKES", "down_seq": "FDELQNNSISQERSLEMINE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526" }, { "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": "Ser170" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1", "end_pos": "1" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "40", "end_pos": "40" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "589", "end_pos": "589" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "737", "end_pos": "737" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "803", "end_pos": "803" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P07271-1.169.169", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07271-1.180.180", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07271-1.184.184", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07271-1.180.180", "start_pos": 180, "end_pos": 180, "uniprot_canonical_ac": "P07271-1", "length": 859, "uniprot_id": "PIF1_YEAST", "protein_name": "ATP-dependent DNA helicase PIF1", "refseq_ac": "NP_013650", "refseq_name": "DNA helicase PIF1", "gene_name": "PIF1", "gene_names_uniprotkb": "PIF1; TST1; YM9958.01C", "gene_names_refseq": "PIF1; TST1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "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": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271", "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": "PLRPALKKESSFDELQNNSI", "down_seq": "QERSLEMINENEKKKMQFGE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526" }, { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser180" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1", "end_pos": "1" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "40", "end_pos": "40" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "589", "end_pos": "589" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "737", "end_pos": "737" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "803", "end_pos": "803" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P07271-1.169.169", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P07271-1.170.170", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07271-1.184.184", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07271-1.184.184", "start_pos": 184, "end_pos": 184, "uniprot_canonical_ac": "P07271-1", "length": 859, "uniprot_id": "PIF1_YEAST", "protein_name": "ATP-dependent DNA helicase PIF1", "refseq_ac": "NP_013650", "refseq_name": "DNA helicase PIF1", "gene_name": "PIF1", "gene_names_uniprotkb": "PIF1; TST1; YM9958.01C", "gene_names_refseq": "PIF1; TST1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271", "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": "ALKKESSFDELQNNSISQER", "down_seq": "LEMINENEKKKMQFGEKIAV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526" }, { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" }, { "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": "mutagenesis", "site_list": [ { "start_pos": "1", "end_pos": "1" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "40", "end_pos": "40" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "589", "end_pos": "589" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "737", "end_pos": "737" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "803", "end_pos": "803" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P07271-1.169.169", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P07271-1.170.170", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07271-1.180.180", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07271-1.210.210", "start_pos": 210, "end_pos": 210, "uniprot_canonical_ac": "P07271-1", "length": 859, "uniprot_id": "PIF1_YEAST", "protein_name": "ATP-dependent DNA helicase PIF1", "refseq_ac": "NP_013650", "refseq_name": "DNA helicase PIF1", "gene_name": "PIF1", "gene_names_uniprotkb": "PIF1; TST1; YM9958.01C", "gene_names_refseq": "PIF1; TST1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" } ], "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": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "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": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526", "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": "ENEKKKMQFGEKIAVLTQRP", "down_seq": "FTELQNDQDDSNLNPHNGVK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser210" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1", "end_pos": "1" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "40", "end_pos": "40" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "589", "end_pos": "589" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "737", "end_pos": "737" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "803", "end_pos": "803" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P07271-1.212.212", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07271-1.212.212", "start_pos": 212, "end_pos": 212, "uniprot_canonical_ac": "P07271-1", "length": 859, "uniprot_id": "PIF1_YEAST", "protein_name": "ATP-dependent DNA helicase PIF1", "refseq_ac": "NP_013650", "refseq_name": "DNA helicase PIF1", "gene_name": "PIF1", "gene_names_uniprotkb": "PIF1; TST1; YM9958.01C", "gene_names_refseq": "PIF1; TST1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271", "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": "EKKKMQFGEKIAVLTQRPSF", "down_seq": "ELQNDQDDSNLNPHNGVKVK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526" }, { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr212" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1", "end_pos": "1" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "40", "end_pos": "40" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "589", "end_pos": "589" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "737", "end_pos": "737" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "803", "end_pos": "803" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07271-1.210.210", "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": "P07271-1.47.47", "start_pos": 47, "end_pos": 47, "uniprot_canonical_ac": "P07271-1", "length": 859, "uniprot_id": "PIF1_YEAST", "protein_name": "ATP-dependent DNA helicase PIF1", "refseq_ac": "NP_013650", "refseq_name": "DNA helicase PIF1", "gene_name": "PIF1", "gene_names_uniprotkb": "PIF1; TST1; YM9958.01C", "gene_names_refseq": "PIF1; TST1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" } ], "common_name": "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": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" }, { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271", "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": "LLKNVSHAKLSFSMSSRGFR", "down_seq": "NNFIQAQLKHPSILSKEDLD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526" }, { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ], "site_lbl": "Ser47" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1", "end_pos": "1" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "40", "end_pos": "40" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "589", "end_pos": "589" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "737", "end_pos": "737" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "803", "end_pos": "803" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P07271-1.40.40", "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": "P07271-1.584.584", "start_pos": 584, "end_pos": 584, "uniprot_canonical_ac": "P07271-1", "length": 859, "uniprot_id": "PIF1_YEAST", "protein_name": "ATP-dependent DNA helicase PIF1", "refseq_ac": "NP_013650", "refseq_name": "DNA helicase PIF1", "gene_name": "PIF1", "gene_names_uniprotkb": "PIF1; TST1; YM9958.01C", "gene_names_refseq": "PIF1; TST1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" } ], "common_name": "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": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" }, { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "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": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "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": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "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": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271", "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": "KLETWAENPSKLKAAMEREQ", "down_seq": "DGEESAVASRKSSVKEGFAK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526" }, { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" }, { "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": "Ser584" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1", "end_pos": "1" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "40", "end_pos": "40" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "589", "end_pos": "589" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "737", "end_pos": "737" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "803", "end_pos": "803" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P07271-1.589.589", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07271-1.593.593", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07271-1.589.589", "start_pos": 589, "end_pos": 589, "uniprot_canonical_ac": "P07271-1", "length": 859, "uniprot_id": "PIF1_YEAST", "protein_name": "ATP-dependent DNA helicase PIF1", "refseq_ac": "NP_013650", "refseq_name": "DNA helicase PIF1", "gene_name": "PIF1", "gene_names_uniprotkb": "PIF1; TST1; YM9958.01C", "gene_names_refseq": "PIF1; TST1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AENPSKLKAAMEREQSDGEE", "down_seq": "AVASRKSSVKEGFAKSDIGE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526" }, { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser589" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1", "end_pos": "1" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "40", "end_pos": "40" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "589", "end_pos": "589" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "737", "end_pos": "737" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "803", "end_pos": "803" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P07271-1.584.584", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07271-1.593.593", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07271-1.593.593", "start_pos": 593, "end_pos": 593, "uniprot_canonical_ac": "P07271-1", "length": 859, "uniprot_id": "PIF1_YEAST", "protein_name": "ATP-dependent DNA helicase PIF1", "refseq_ac": "NP_013650", "refseq_name": "DNA helicase PIF1", "gene_name": "PIF1", "gene_names_uniprotkb": "PIF1; TST1; YM9958.01C", "gene_names_refseq": "PIF1; TST1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SKLKAAMEREQSDGEESAVA", "down_seq": "RKSSVKEGFAKSDIGEPVSP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526" }, { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser593" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1", "end_pos": "1" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "40", "end_pos": "40" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "589", "end_pos": "589" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "737", "end_pos": "737" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "803", "end_pos": "803" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P07271-1.584.584", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07271-1.589.589", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P07271-1.612.612", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07271-1.612.612", "start_pos": 612, "end_pos": 612, "uniprot_canonical_ac": "P07271-1", "length": 859, "uniprot_id": "PIF1_YEAST", "protein_name": "ATP-dependent DNA helicase PIF1", "refseq_ac": "NP_013650", "refseq_name": "DNA helicase PIF1", "gene_name": "PIF1", "gene_names_uniprotkb": "PIF1; TST1; YM9958.01C", "gene_names_refseq": "PIF1; TST1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ASRKSSVKEGFAKSDIGEPV", "down_seq": "PLDSSVFDFMKRVKTDDEVV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526" }, { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser612" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1", "end_pos": "1" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "40", "end_pos": "40" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "589", "end_pos": "589" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "737", "end_pos": "737" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "803", "end_pos": "803" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P07271-1.593.593", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07271-1.70.70", "start_pos": 70, "end_pos": 70, "uniprot_canonical_ac": "P07271-1", "length": 859, "uniprot_id": "PIF1_YEAST", "protein_name": "ATP-dependent DNA helicase PIF1", "refseq_ac": "NP_013650", "refseq_name": "DNA helicase PIF1", "gene_name": "PIF1", "gene_names_uniprotkb": "PIF1; TST1; YM9958.01C", "gene_names_refseq": "PIF1; TST1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" }, { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FIQAQLKHPSILSKEDLDLL", "down_seq": "DSDDWEEPDCIQLETEKQEK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" }, { "database": "SGD", "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526" } ], "site_lbl": "Ser70" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1", "end_pos": "1" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "40", "end_pos": "40" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "589", "end_pos": "589" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "737", "end_pos": "737" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "803", "end_pos": "803" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P07271-1.72.72", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07271-1.72.72", "start_pos": 72, "end_pos": 72, "uniprot_canonical_ac": "P07271-1", "length": 859, "uniprot_id": "PIF1_YEAST", "protein_name": "ATP-dependent DNA helicase PIF1", "refseq_ac": "NP_013650", "refseq_name": "DNA helicase PIF1", "gene_name": "PIF1", "gene_names_uniprotkb": "PIF1; TST1; YM9958.01C", "gene_names_refseq": "PIF1; TST1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" }, { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QAQLKHPSILSKEDLDLLSD", "down_seq": "DDWEEPDCIQLETEKQEKKI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" }, { "database": "SGD", "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526" } ], "site_lbl": "Ser72" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1", "end_pos": "1" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "40", "end_pos": "40" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "589", "end_pos": "589" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "737", "end_pos": "737" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "803", "end_pos": "803" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07271-1.70.70", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07271-1.737.737", "start_pos": 737, "end_pos": 737, "uniprot_canonical_ac": "P07271-1", "length": 859, "uniprot_id": "PIF1_YEAST", "protein_name": "ATP-dependent DNA helicase PIF1", "refseq_ac": "NP_013650", "refseq_name": "DNA helicase PIF1", "gene_name": "PIF1", "gene_names_uniprotkb": "PIF1; TST1; YM9958.01C", "gene_names_refseq": "PIF1; TST1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271", "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": "VDLRRVFEKGQAYVALSRAV", "down_seq": "REGLQVLNFDRTRIKAHQKV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526" }, { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser737" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1", "end_pos": "1" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "40", "end_pos": "40" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "589", "end_pos": "589" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "737", "end_pos": "737" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "803", "end_pos": "803" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07271-1.763.763", "start_pos": 763, "end_pos": 763, "uniprot_canonical_ac": "P07271-1", "length": 859, "uniprot_id": "PIF1_YEAST", "protein_name": "ATP-dependent DNA helicase PIF1", "refseq_ac": "NP_013650", "refseq_name": "DNA helicase PIF1", "gene_name": "PIF1", "gene_names_uniprotkb": "PIF1; TST1; YM9958.01C", "gene_names_refseq": "PIF1; TST1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "DNA damage signalling prevents deleterious telomere addition at DNA breaks.", "journal": "Nature cell biology", "date": "2009-11", "authors": "Makovets Svetlana, Blackburn Elizabeth H", "evidence": [ { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "reference": [ { "type": "PubMed", "id": "19838171", "url": "https://glygen.org/publication/PubMed/19838171" } ] } ], "crossref": [ { "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19838171", "url": "https://glygen.org/publication/PubMed/19838171", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "VLNFDRTRIKAHQKVIDFYL", "down_seq": "LSSAESAYKQLEADEQVKKR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526" }, { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" }, { "database": "PubMed", "id": "19838171", "url": "https://glygen.org/publication/PubMed/19838171" } ], "site_lbl": "Thr763" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1", "end_pos": "1" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "40", "end_pos": "40" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "589", "end_pos": "589" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "737", "end_pos": "737" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "803", "end_pos": "803" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P07271-1.766.766", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07271-1.766.766", "start_pos": 766, "end_pos": 766, "uniprot_canonical_ac": "P07271-1", "length": 859, "uniprot_id": "PIF1_YEAST", "protein_name": "ATP-dependent DNA helicase PIF1", "refseq_ac": "NP_013650", "refseq_name": "DNA helicase PIF1", "gene_name": "PIF1", "gene_names_uniprotkb": "PIF1; TST1; YM9958.01C", "gene_names_refseq": "PIF1; TST1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "DNA damage signalling prevents deleterious telomere addition at DNA breaks.", "journal": "Nature cell biology", "date": "2009-11", "authors": "Makovets Svetlana, Blackburn Elizabeth H", "evidence": [ { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "reference": [ { "type": "PubMed", "id": "19838171", "url": "https://glygen.org/publication/PubMed/19838171" } ] } ], "crossref": [ { "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19838171", "url": "https://glygen.org/publication/PubMed/19838171", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FDRTRIKAHQKVIDFYLTLS", "down_seq": "AESAYKQLEADEQVKKRKLD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526" }, { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" }, { "database": "PubMed", "id": "19838171", "url": "https://glygen.org/publication/PubMed/19838171" } ], "site_lbl": "Ser766" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1", "end_pos": "1" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "40", "end_pos": "40" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "589", "end_pos": "589" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "737", "end_pos": "737" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "803", "end_pos": "803" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P07271-1.763.763", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07271-1.803.803", "start_pos": 803, "end_pos": 803, "uniprot_canonical_ac": "P07271-1", "length": 859, "uniprot_id": "PIF1_YEAST", "protein_name": "ATP-dependent DNA helicase PIF1", "refseq_ac": "NP_013650", "refseq_name": "DNA helicase PIF1", "gene_name": "PIF1", "gene_names_uniprotkb": "PIF1; TST1; YM9958.01C", "gene_names_refseq": "PIF1; TST1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07271", "url": "https://www.uniprot.org/uniprotkb/P07271" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "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": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271", "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": "RKLDYAPGPKYKAKSKSKSN", "down_seq": "PAPISATTQSNNGIAAMLQR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004526", "url": "https://www.yeastgenome.org/locus/S000004526" }, { "database": "iPTMnet", "id": "P07271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07271" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser803" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1", "end_pos": "1" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "40", "end_pos": "40" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "589", "end_pos": "589" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "737", "end_pos": "737" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "803", "end_pos": "803" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07273-1.101.101", "start_pos": 101, "end_pos": 101, "uniprot_canonical_ac": "P07273-1", "length": 309, "uniprot_id": "TFS2_YEAST", "protein_name": "Transcription elongation factor S-II", "refseq_ac": "NP_011472", "refseq_name": "transcription elongation factor DST1", "gene_name": "DST1", "gene_names_uniprotkb": "DST1; PPR2", "gene_names_refseq": "DST1; PPR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07273", "url": "https://www.uniprot.org/uniprotkb/P07273" } ], "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": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273", "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": "RSRQAQQHHQDHAPGNAEDK", "down_seq": "TVGESVNGVQQPASSQSDAM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Thr101" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "3", "end_pos": "3" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "upstream", "id": "P07273-1.115.115", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07273-1.116.116", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P07273-1.118.118", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07273-1.115.115", "start_pos": 115, "end_pos": 115, "uniprot_canonical_ac": "P07273-1", "length": 309, "uniprot_id": "TFS2_YEAST", "protein_name": "Transcription elongation factor S-II", "refseq_ac": "NP_011472", "refseq_name": "transcription elongation factor DST1", "gene_name": "DST1", "gene_names_uniprotkb": "DST1; PPR2", "gene_names_refseq": "DST1; PPR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07273", "url": "https://www.uniprot.org/uniprotkb/P07273" } ], "common_name": "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": "P07273", "url": "https://www.uniprot.org/uniprotkb/P07273" }, { "database": "iPTMnet", "id": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273" } ], "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": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273" } ], "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": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003011", "url": "https://www.yeastgenome.org/locus/S000003011", "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": "GNAEDKTTVGESVNGVQQPA", "down_seq": "SQSDAMKQDKYVSTKPRNSK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000003011", "url": "https://www.yeastgenome.org/locus/S000003011" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser115" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "3", "end_pos": "3" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P07273-1.101.101", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07273-1.116.116", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07273-1.118.118", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07273-1.116.116", "start_pos": 116, "end_pos": 116, "uniprot_canonical_ac": "P07273-1", "length": 309, "uniprot_id": "TFS2_YEAST", "protein_name": "Transcription elongation factor S-II", "refseq_ac": "NP_011472", "refseq_name": "transcription elongation factor DST1", "gene_name": "DST1", "gene_names_uniprotkb": "DST1; PPR2", "gene_names_refseq": "DST1; PPR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07273", "url": "https://www.uniprot.org/uniprotkb/P07273" } ], "common_name": "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": "P07273", "url": "https://www.uniprot.org/uniprotkb/P07273" }, { "database": "iPTMnet", "id": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273" } ], "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": "P07273", "url": "https://www.uniprot.org/uniprotkb/P07273" }, { "database": "iPTMnet", "id": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "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": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273" } ], "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": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273" } ], "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": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273", "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": "20190278", "url": "https://glygen.org/publication/PubMed/20190278", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07273", "url": "https://www.uniprot.org/uniprotkb/P07273", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "S000003011", "url": "https://www.yeastgenome.org/locus/S000003011", "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": "NAEDKTTVGESVNGVQQPAS", "down_seq": "QSDAMKQDKYVSTKPRNSKN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P38110-1", "kinase_gene_name": "TEL1", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273" }, { "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": "20190278", "url": "https://glygen.org/publication/PubMed/20190278" } ], "site_lbl": "Ser116" }, { "kinase_uniprot_canonical_ac": "P38111-1", "kinase_gene_name": "MEC1", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273" }, { "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": "20190278", "url": "https://glygen.org/publication/PubMed/20190278" } ], "site_lbl": "Ser116" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07273", "url": "https://www.uniprot.org/uniprotkb/P07273" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000003011", "url": "https://www.yeastgenome.org/locus/S000003011" }, { "database": "iPTMnet", "id": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273" }, { "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": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser116" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "3", "end_pos": "3" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P07273-1.101.101", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07273-1.115.115", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07273-1.118.118", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07273-1.118.118", "start_pos": 118, "end_pos": 118, "uniprot_canonical_ac": "P07273-1", "length": 309, "uniprot_id": "TFS2_YEAST", "protein_name": "Transcription elongation factor S-II", "refseq_ac": "NP_011472", "refseq_name": "transcription elongation factor DST1", "gene_name": "DST1", "gene_names_uniprotkb": "DST1; PPR2", "gene_names_refseq": "DST1; PPR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07273", "url": "https://www.uniprot.org/uniprotkb/P07273" } ], "common_name": "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": "P07273", "url": "https://www.uniprot.org/uniprotkb/P07273" }, { "database": "iPTMnet", "id": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "S000003011", "url": "https://www.yeastgenome.org/locus/S000003011", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273", "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": "EDKTTVGESVNGVQQPASSQ", "down_seq": "DAMKQDKYVSTKPRNSKNDG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003011", "url": "https://www.yeastgenome.org/locus/S000003011" }, { "database": "iPTMnet", "id": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ], "site_lbl": "Ser118" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "3", "end_pos": "3" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P07273-1.101.101", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07273-1.115.115", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07273-1.116.116", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07273-1.224.224", "start_pos": 224, "end_pos": 224, "uniprot_canonical_ac": "P07273-1", "length": 309, "uniprot_id": "TFS2_YEAST", "protein_name": "Transcription elongation factor S-II", "refseq_ac": "NP_011472", "refseq_name": "transcription elongation factor DST1", "gene_name": "DST1", "gene_names_uniprotkb": "DST1; PPR2", "gene_names_refseq": "DST1; PPR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07273", "url": "https://www.uniprot.org/uniprotkb/P07273" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003011", "url": "https://www.yeastgenome.org/locus/S000003011", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273", "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": "SNVISKNNPDLKHKIANGDI", "down_seq": "PEFLATCDAKDLAPAPLKQK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003011", "url": "https://www.yeastgenome.org/locus/S000003011" }, { "database": "iPTMnet", "id": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr224" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "3", "end_pos": "3" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07273-1.264.264", "start_pos": 264, "end_pos": 264, "uniprot_canonical_ac": "P07273-1", "length": 309, "uniprot_id": "TFS2_YEAST", "protein_name": "Transcription elongation factor S-II", "refseq_ac": "NP_011472", "refseq_name": "transcription elongation factor DST1", "gene_name": "DST1", "gene_names_uniprotkb": "DST1; PPR2", "gene_names_refseq": "DST1; PPR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07273", "url": "https://www.uniprot.org/uniprotkb/P07273" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003011", "url": "https://www.yeastgenome.org/locus/S000003011", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KIEEIAKQNLYNAQGATIER", "down_seq": "VTDRFTCGKCKEKKVSYYQL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003011", "url": "https://www.yeastgenome.org/locus/S000003011" }, { "database": "iPTMnet", "id": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser264" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "3", "end_pos": "3" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P07273-1.266.266", "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": "P07273-1.266.266", "start_pos": 266, "end_pos": 266, "uniprot_canonical_ac": "P07273-1", "length": 309, "uniprot_id": "TFS2_YEAST", "protein_name": "Transcription elongation factor S-II", "refseq_ac": "NP_011472", "refseq_name": "transcription elongation factor DST1", "gene_name": "DST1", "gene_names_uniprotkb": "DST1; PPR2", "gene_names_refseq": "DST1; PPR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07273", "url": "https://www.uniprot.org/uniprotkb/P07273" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003011", "url": "https://www.yeastgenome.org/locus/S000003011", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273", "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": "EEIAKQNLYNAQGATIERSV", "down_seq": "DRFTCGKCKEKKVSYYQLQT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003011", "url": "https://www.yeastgenome.org/locus/S000003011" }, { "database": "iPTMnet", "id": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr266" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "3", "end_pos": "3" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07273-1.264.264", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07273-1.288.288", "start_pos": 288, "end_pos": 288, "uniprot_canonical_ac": "P07273-1", "length": 309, "uniprot_id": "TFS2_YEAST", "protein_name": "Transcription elongation factor S-II", "refseq_ac": "NP_011472", "refseq_name": "transcription elongation factor DST1", "gene_name": "DST1", "gene_names_uniprotkb": "DST1; PPR2", "gene_names_refseq": "DST1; PPR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07273", "url": "https://www.uniprot.org/uniprotkb/P07273" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003011", "url": "https://www.yeastgenome.org/locus/S000003011", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RFTCGKCKEKKVSYYQLQTR", "down_seq": "ADEPLTTFCTCEACGNRWKF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003011", "url": "https://www.yeastgenome.org/locus/S000003011" }, { "database": "iPTMnet", "id": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser288" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "3", "end_pos": "3" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07273-1.3.3", "start_pos": 3, "end_pos": 3, "uniprot_canonical_ac": "P07273-1", "length": 309, "uniprot_id": "TFS2_YEAST", "protein_name": "Transcription elongation factor S-II", "refseq_ac": "NP_011472", "refseq_name": "transcription elongation factor DST1", "gene_name": "DST1", "gene_names_uniprotkb": "DST1; PPR2", "gene_names_refseq": "DST1; PPR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07273", "url": "https://www.uniprot.org/uniprotkb/P07273" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003011", "url": "https://www.yeastgenome.org/locus/S000003011", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MD", "down_seq": "KEVLVHVKNLEKNKSNDAAV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003011", "url": "https://www.yeastgenome.org/locus/S000003011" }, { "database": "iPTMnet", "id": "P07273", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07273" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser3" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "3", "end_pos": "3" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07274-1.72.72", "start_pos": 72, "end_pos": 72, "uniprot_canonical_ac": "P07274-1", "length": 126, "uniprot_id": "PROF_YEAST", "protein_name": "Profilin", "refseq_ac": "NP_014765", "refseq_name": "profilin", "gene_name": "PFY1", "gene_names_uniprotkb": "PFY1; CLS5; O3275; PFY; PRF1; YOR3275C", "gene_names_refseq": "CLS5; PFY1; PRF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07274", "url": "https://www.uniprot.org/uniprotkb/P07274" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mutational analysis of yeast profilin.", "journal": "Molecular and cellular biology", "date": "1993-12", "authors": "Haarer B K, Petzold A S, Brown S S", "evidence": [ { "database": "UniProtKB", "id": "P07274", "url": "https://www.uniprot.org/uniprotkb/P07274" } ], "reference": [ { "type": "PubMed", "id": "8247001", "url": "https://glygen.org/publication/PubMed/8247001" } ] } ], "crossref": [ { "id": "P07274", "url": "https://www.uniprot.org/uniprotkb/P07274", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "8247001", "url": "https://glygen.org/publication/PubMed/8247001", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "NPAGLQSNGLHIQGQKFMLL", "down_seq": "ADDRSIYGRHDAEGVVCVRT", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "G", "comment": "Abolishes binding to phosphatidylinositol 4,5-bisphosphate and decreases binding to actin.", "evidence": [ { "database": "UniProtKB", "id": "P07274", "url": "https://www.uniprot.org/uniprotkb/P07274" }, { "database": "PubMed", "id": "8247001", "url": "https://glygen.org/publication/PubMed/8247001" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "72", "end_pos": "72" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "81", "end_pos": "81" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "77", "end_pos": "77" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P07274-1.76.76", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07274-1.77.77", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07274-1.81.81", "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": "P07274-1.76.76", "start_pos": 76, "end_pos": 76, "uniprot_canonical_ac": "P07274-1", "length": 126, "uniprot_id": "PROF_YEAST", "protein_name": "Profilin", "refseq_ac": "NP_014765", "refseq_name": "profilin", "gene_name": "PFY1", "gene_names_uniprotkb": "PFY1; CLS5; O3275; PFY; PRF1; YOR3275C", "gene_names_refseq": "CLS5; PFY1; PRF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07274", "url": "https://www.uniprot.org/uniprotkb/P07274" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mutational analysis of yeast profilin.", "journal": "Molecular and cellular biology", "date": "1993-12", "authors": "Haarer B K, Petzold A S, Brown S S", "evidence": [ { "database": "UniProtKB", "id": "P07274", "url": "https://www.uniprot.org/uniprotkb/P07274" } ], "reference": [ { "type": "PubMed", "id": "8247001", "url": "https://glygen.org/publication/PubMed/8247001" } ] } ], "crossref": [ { "id": "P07274", "url": "https://www.uniprot.org/uniprotkb/P07274", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "8247001", "url": "https://glygen.org/publication/PubMed/8247001", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "LQSNGLHIQGQKFMLLRADD", "down_seq": "SIYGRHDAEGVVCVRTKQTV", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "E", "comment": "Partially suppresses defects associated with mutation of the adenylate cyclase-associated protein but does not affect the binding to phosphatidylinositol 4,5-bisphosphate.", "evidence": [ { "database": "UniProtKB", "id": "P07274", "url": "https://www.uniprot.org/uniprotkb/P07274" }, { "database": "PubMed", "id": "8247001", "url": "https://glygen.org/publication/PubMed/8247001" } ] }, { "sequence_org": "R", "sequence_mut": "G", "comment": "Partially suppresses defects associated with mutation of the adenylate cyclase-associated protein and decreases binding to phosphatidylinositol 4,5-bisphosphate.", "evidence": [ { "database": "UniProtKB", "id": "P07274", "url": "https://www.uniprot.org/uniprotkb/P07274" }, { "database": "PubMed", "id": "8247001", "url": "https://glygen.org/publication/PubMed/8247001" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "72", "end_pos": "72" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "81", "end_pos": "81" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "77", "end_pos": "77" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P07274-1.72.72", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07274-1.77.77", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07274-1.81.81", "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": "P07274-1.81.81", "start_pos": 81, "end_pos": 81, "uniprot_canonical_ac": "P07274-1", "length": 126, "uniprot_id": "PROF_YEAST", "protein_name": "Profilin", "refseq_ac": "NP_014765", "refseq_name": "profilin", "gene_name": "PFY1", "gene_names_uniprotkb": "PFY1; CLS5; O3275; PFY; PRF1; YOR3275C", "gene_names_refseq": "CLS5; PFY1; PRF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07274", "url": "https://www.uniprot.org/uniprotkb/P07274" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mutational analysis of yeast profilin.", "journal": "Molecular and cellular biology", "date": "1993-12", "authors": "Haarer B K, Petzold A S, Brown S S", "evidence": [ { "database": "UniProtKB", "id": "P07274", "url": "https://www.uniprot.org/uniprotkb/P07274" } ], "reference": [ { "type": "PubMed", "id": "8247001", "url": "https://glygen.org/publication/PubMed/8247001" } ] } ], "crossref": [ { "id": "P07274", "url": "https://www.uniprot.org/uniprotkb/P07274", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "8247001", "url": "https://glygen.org/publication/PubMed/8247001", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "LHIQGQKFMLLRADDRSIYG", "down_seq": "HDAEGVVCVRTKQTVIIAHY", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "G", "comment": "Decreases binding to actin.", "evidence": [ { "database": "UniProtKB", "id": "P07274", "url": "https://www.uniprot.org/uniprotkb/P07274" }, { "database": "PubMed", "id": "8247001", "url": "https://glygen.org/publication/PubMed/8247001" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "72", "end_pos": "72" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "81", "end_pos": "81" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "77", "end_pos": "77" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P07274-1.72.72", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07274-1.76.76", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07274-1.77.77", "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": "P07274-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P07274-1", "length": 126, "uniprot_id": "PROF_YEAST", "protein_name": "Profilin", "refseq_ac": "NP_014765", "refseq_name": "profilin", "gene_name": "PFY1", "gene_names_uniprotkb": "PFY1; CLS5; O3275; PFY; PRF1; YOR3275C", "gene_names_refseq": "CLS5; PFY1; PRF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07274", "url": "https://www.uniprot.org/uniprotkb/P07274" } ], "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": "P07274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07274" } ], "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": "P07274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07274" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07274", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005648", "url": "https://www.yeastgenome.org/locus/S000005648", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "M", "down_seq": "WQAYTDNLIGTGKVDKAVIY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07274" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000005648", "url": "https://www.yeastgenome.org/locus/S000005648" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "72", "end_pos": "72" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "81", "end_pos": "81" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "77", "end_pos": "77" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P07274-1.6.6", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07274-1.6.6", "start_pos": 6, "end_pos": 6, "uniprot_canonical_ac": "P07274-1", "length": 126, "uniprot_id": "PROF_YEAST", "protein_name": "Profilin", "refseq_ac": "NP_014765", "refseq_name": "profilin", "gene_name": "PFY1", "gene_names_uniprotkb": "PFY1; CLS5; O3275; PFY; PRF1; YOR3275C", "gene_names_refseq": "CLS5; PFY1; PRF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07274", "url": "https://www.uniprot.org/uniprotkb/P07274" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07274" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005648", "url": "https://www.yeastgenome.org/locus/S000005648", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07274", "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": "MSWQA", "down_seq": "TDNLIGTGKVDKAVIYSRAG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005648", "url": "https://www.yeastgenome.org/locus/S000005648" }, { "database": "iPTMnet", "id": "P07274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07274" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr6" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "72", "end_pos": "72" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "81", "end_pos": "81" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "77", "end_pos": "77" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P07274-1.2.2", "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": "P07274-1.77.77", "start_pos": 77, "end_pos": 77, "uniprot_canonical_ac": "P07274-1", "length": 126, "uniprot_id": "PROF_YEAST", "protein_name": "Profilin", "refseq_ac": "NP_014765", "refseq_name": "profilin", "gene_name": "PFY1", "gene_names_uniprotkb": "PFY1; CLS5; O3275; PFY; PRF1; YOR3275C", "gene_names_refseq": "CLS5; PFY1; PRF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07274", "url": "https://www.uniprot.org/uniprotkb/P07274" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07274" } ], "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": "P07274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07274" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005648", "url": "https://www.yeastgenome.org/locus/S000005648", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07274", "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": "QSNGLHIQGQKFMLLRADDR", "down_seq": "IYGRHDAEGVVCVRTKQTVI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005648", "url": "https://www.yeastgenome.org/locus/S000005648" }, { "database": "iPTMnet", "id": "P07274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07274" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser77" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "72", "end_pos": "72" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "81", "end_pos": "81" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "77", "end_pos": "77" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P07274-1.72.72", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07274-1.76.76", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07274-1.81.81", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07276-1.118.118", "start_pos": 118, "end_pos": 118, "uniprot_canonical_ac": "P07276-1", "length": 1031, "uniprot_id": "RAD2_YEAST", "protein_name": "DNA repair protein RAD2", "refseq_ac": "NP_011774", "refseq_name": "ssDNA endodeoxyribonuclease RAD2", "gene_name": "RAD2", "gene_names_uniprotkb": "RAD2", "gene_names_refseq": "RAD2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07276", "url": "https://www.uniprot.org/uniprotkb/P07276" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07276", "url": "https://www.uniprot.org/uniprotkb/P07276" }, { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "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": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "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": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "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": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07276", "url": "https://www.uniprot.org/uniprotkb/P07276", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490", "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": "KRESAKSTARKLLALQLQNG", "down_seq": "NDNVKNSTPSSGSSVQIFKP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07276", "url": "https://www.uniprot.org/uniprotkb/P07276" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser118" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "118", "end_pos": "118" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "680", "end_pos": "680" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "upstream", "id": "P07276-1.128.128", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07276-1.131.131", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07276-1.128.128", "start_pos": 128, "end_pos": 128, "uniprot_canonical_ac": "P07276-1", "length": 1031, "uniprot_id": "RAD2_YEAST", "protein_name": "DNA repair protein RAD2", "refseq_ac": "NP_011774", "refseq_name": "ssDNA endodeoxyribonuclease RAD2", "gene_name": "RAD2", "gene_names_uniprotkb": "RAD2", "gene_names_refseq": "RAD2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07276", "url": "https://www.uniprot.org/uniprotkb/P07276" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KLLALQLQNGSNDNVKNSTP", "down_seq": "SGSSVQIFKPQDEWDLPDIP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490" }, { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser128" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "118", "end_pos": "118" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "680", "end_pos": "680" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P07276-1.118.118", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07276-1.131.131", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07276-1.131.131", "start_pos": 131, "end_pos": 131, "uniprot_canonical_ac": "P07276-1", "length": 1031, "uniprot_id": "RAD2_YEAST", "protein_name": "DNA repair protein RAD2", "refseq_ac": "NP_011774", "refseq_name": "ssDNA endodeoxyribonuclease RAD2", "gene_name": "RAD2", "gene_names_uniprotkb": "RAD2", "gene_names_refseq": "RAD2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07276", "url": "https://www.uniprot.org/uniprotkb/P07276" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ALQLQNGSNDNVKNSTPSSG", "down_seq": "SVQIFKPQDEWDLPDIPGFK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490" }, { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser131" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "118", "end_pos": "118" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "680", "end_pos": "680" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P07276-1.118.118", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07276-1.128.128", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07276-1.161.161", "start_pos": 161, "end_pos": 161, "uniprot_canonical_ac": "P07276-1", "length": 1031, "uniprot_id": "RAD2_YEAST", "protein_name": "DNA repair protein RAD2", "refseq_ac": "NP_011774", "refseq_name": "ssDNA endodeoxyribonuclease RAD2", "gene_name": "RAD2", "gene_names_uniprotkb": "RAD2", "gene_names_refseq": "RAD2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07276", "url": "https://www.uniprot.org/uniprotkb/P07276" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EWDLPDIPGFKYDKEDARVN", "down_seq": "NKTFEKLMNSINGDGLEDID", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490" }, { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser161" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "118", "end_pos": "118" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "680", "end_pos": "680" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P07276-1.164.164", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07276-1.164.164", "start_pos": 164, "end_pos": 164, "uniprot_canonical_ac": "P07276-1", "length": 1031, "uniprot_id": "RAD2_YEAST", "protein_name": "DNA repair protein RAD2", "refseq_ac": "NP_011774", "refseq_name": "ssDNA endodeoxyribonuclease RAD2", "gene_name": "RAD2", "gene_names_uniprotkb": "RAD2", "gene_names_refseq": "RAD2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07276", "url": "https://www.uniprot.org/uniprotkb/P07276" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276", "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": "LPDIPGFKYDKEDARVNSNK", "down_seq": "FEKLMNSINGDGLEDIDLDT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490" }, { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr164" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "118", "end_pos": "118" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "680", "end_pos": "680" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P07276-1.161.161", "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": "P07276-1.321.321", "start_pos": 321, "end_pos": 321, "uniprot_canonical_ac": "P07276-1", "length": 1031, "uniprot_id": "RAD2_YEAST", "protein_name": "DNA repair protein RAD2", "refseq_ac": "NP_011774", "refseq_name": "ssDNA endodeoxyribonuclease RAD2", "gene_name": "RAD2", "gene_names_uniprotkb": "RAD2", "gene_names_refseq": "RAD2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07276", "url": "https://www.uniprot.org/uniprotkb/P07276" } ], "common_name": "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": "P07276", "url": "https://www.uniprot.org/uniprotkb/P07276" }, { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "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": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490", "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": "AQKAIVIDDKDAGALVKQLD", "down_seq": "NAEDGDVLRWDDLEDNSLKI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser321" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "118", "end_pos": "118" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "680", "end_pos": "680" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "upstream", "id": "P07276-1.338.338", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07276-1.338.338", "start_pos": 338, "end_pos": 338, "uniprot_canonical_ac": "P07276-1", "length": 1031, "uniprot_id": "RAD2_YEAST", "protein_name": "DNA repair protein RAD2", "refseq_ac": "NP_011774", "refseq_name": "ssDNA endodeoxyribonuclease RAD2", "gene_name": "RAD2", "gene_names_uniprotkb": "RAD2", "gene_names_refseq": "RAD2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07276", "url": "https://www.uniprot.org/uniprotkb/P07276" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QLDSNAEDGDVLRWDDLEDN", "down_seq": "LKIVRHESSNATTAPQKRSN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490" }, { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser338" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "118", "end_pos": "118" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "680", "end_pos": "680" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P07276-1.321.321", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07276-1.346.346", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07276-1.346.346", "start_pos": 346, "end_pos": 346, "uniprot_canonical_ac": "P07276-1", "length": 1031, "uniprot_id": "RAD2_YEAST", "protein_name": "DNA repair protein RAD2", "refseq_ac": "NP_011774", "refseq_name": "ssDNA endodeoxyribonuclease RAD2", "gene_name": "RAD2", "gene_names_uniprotkb": "RAD2", "gene_names_refseq": "RAD2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07276", "url": "https://www.uniprot.org/uniprotkb/P07276" } ], "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": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "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": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490", "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": "GDVLRWDDLEDNSLKIVRHE", "down_seq": "SNATTAPQKRSNRSEDEGCD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser346" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "118", "end_pos": "118" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "680", "end_pos": "680" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P07276-1.338.338", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07276-1.360.360", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07276-1.360.360", "start_pos": 360, "end_pos": 360, "uniprot_canonical_ac": "P07276-1", "length": 1031, "uniprot_id": "RAD2_YEAST", "protein_name": "DNA repair protein RAD2", "refseq_ac": "NP_011774", "refseq_name": "ssDNA endodeoxyribonuclease RAD2", "gene_name": "RAD2", "gene_names_uniprotkb": "RAD2", "gene_names_refseq": "RAD2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07276", "url": "https://www.uniprot.org/uniprotkb/P07276" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KIVRHESSNATTAPQKRSNR", "down_seq": "EDEGCDSDECEWEEVELKPK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490" }, { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser360" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "118", "end_pos": "118" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "680", "end_pos": "680" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P07276-1.346.346", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07276-1.367.367", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07276-1.367.367", "start_pos": 367, "end_pos": 367, "uniprot_canonical_ac": "P07276-1", "length": 1031, "uniprot_id": "RAD2_YEAST", "protein_name": "DNA repair protein RAD2", "refseq_ac": "NP_011774", "refseq_name": "ssDNA endodeoxyribonuclease RAD2", "gene_name": "RAD2", "gene_names_uniprotkb": "RAD2", "gene_names_refseq": "RAD2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07276", "url": "https://www.uniprot.org/uniprotkb/P07276" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07276", "url": "https://www.uniprot.org/uniprotkb/P07276" }, { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "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": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "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": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07276", "url": "https://www.uniprot.org/uniprotkb/P07276", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490", "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": "SNATTAPQKRSNRSEDEGCD", "down_seq": "DECEWEEVELKPKNVKFVED", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07276", "url": "https://www.uniprot.org/uniprotkb/P07276" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" }, { "database": "SGD", "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser367" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "118", "end_pos": "118" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "680", "end_pos": "680" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P07276-1.360.360", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07276-1.419.419", "start_pos": 419, "end_pos": 419, "uniprot_canonical_ac": "P07276-1", "length": 1031, "uniprot_id": "RAD2_YEAST", "protein_name": "DNA repair protein RAD2", "refseq_ac": "NP_011774", "refseq_name": "ssDNA endodeoxyribonuclease RAD2", "gene_name": "RAD2", "gene_names_uniprotkb": "RAD2", "gene_names_refseq": "RAD2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07276", "url": "https://www.uniprot.org/uniprotkb/P07276" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GQSLNNAGSKSFLDKRHDQA", "down_seq": "PSKTTPTMRISRISVEDDDE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490" }, { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser419" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "118", "end_pos": "118" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "680", "end_pos": "680" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P07276-1.421.421", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07276-1.433.433", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07276-1.421.421", "start_pos": 421, "end_pos": 421, "uniprot_canonical_ac": "P07276-1", "length": 1031, "uniprot_id": "RAD2_YEAST", "protein_name": "DNA repair protein RAD2", "refseq_ac": "NP_011774", "refseq_name": "ssDNA endodeoxyribonuclease RAD2", "gene_name": "RAD2", "gene_names_uniprotkb": "RAD2", "gene_names_refseq": "RAD2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07276", "url": "https://www.uniprot.org/uniprotkb/P07276" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SLNNAGSKSFLDKRHDQASP", "down_seq": "KTTPTMRISRISVEDDDEDY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490" }, { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser421" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "118", "end_pos": "118" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "680", "end_pos": "680" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07276-1.419.419", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P07276-1.433.433", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07276-1.433.433", "start_pos": 433, "end_pos": 433, "uniprot_canonical_ac": "P07276-1", "length": 1031, "uniprot_id": "RAD2_YEAST", "protein_name": "DNA repair protein RAD2", "refseq_ac": "NP_011774", "refseq_name": "ssDNA endodeoxyribonuclease RAD2", "gene_name": "RAD2", "gene_names_uniprotkb": "RAD2", "gene_names_refseq": "RAD2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07276", "url": "https://www.uniprot.org/uniprotkb/P07276" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KRHDQASPSKTTPTMRISRI", "down_seq": "VEDDDEDYLKQIEEIEMMEA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490" }, { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser433" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "118", "end_pos": "118" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "680", "end_pos": "680" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P07276-1.419.419", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P07276-1.421.421", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07276-1.530.530", "start_pos": 530, "end_pos": 530, "uniprot_canonical_ac": "P07276-1", "length": 1031, "uniprot_id": "RAD2_YEAST", "protein_name": "DNA repair protein RAD2", "refseq_ac": "NP_011774", "refseq_name": "ssDNA endodeoxyribonuclease RAD2", "gene_name": "RAD2", "gene_names_uniprotkb": "RAD2", "gene_names_refseq": "RAD2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07276", "url": "https://www.uniprot.org/uniprotkb/P07276" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KSESVIKRTSKTVLSEFRPP", "down_seq": "QQEDKGAILTEGEQNLNFIS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490" }, { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser530" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "118", "end_pos": "118" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "680", "end_pos": "680" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07276-1.575.575", "start_pos": 575, "end_pos": 575, "uniprot_canonical_ac": "P07276-1", "length": 1031, "uniprot_id": "RAD2_YEAST", "protein_name": "DNA repair protein RAD2", "refseq_ac": "NP_011774", "refseq_name": "ssDNA endodeoxyribonuclease RAD2", "gene_name": "RAD2", "gene_names_uniprotkb": "RAD2", "gene_names_refseq": "RAD2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07276", "url": "https://www.uniprot.org/uniprotkb/P07276" } ], "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": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "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": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "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": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490", "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": "QFDFNNENSLLFQKNTESNV", "down_seq": "QEATKEKSPIPEMPSWFSST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490" }, { "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": "Ser575" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "118", "end_pos": "118" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "680", "end_pos": "680" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "upstream", "id": "P07276-1.583.583", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07276-1.583.583", "start_pos": 583, "end_pos": 583, "uniprot_canonical_ac": "P07276-1", "length": 1031, "uniprot_id": "RAD2_YEAST", "protein_name": "DNA repair protein RAD2", "refseq_ac": "NP_011774", "refseq_name": "ssDNA endodeoxyribonuclease RAD2", "gene_name": "RAD2", "gene_names_uniprotkb": "RAD2", "gene_names_refseq": "RAD2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07276", "url": "https://www.uniprot.org/uniprotkb/P07276" } ], "common_name": "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": "P07276", "url": "https://www.uniprot.org/uniprotkb/P07276" }, { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "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": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07276", "url": "https://www.uniprot.org/uniprotkb/P07276", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490", "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": "SLLFQKNTESNVSQEATKEK", "down_seq": "PIPEMPSWFSSTASQQLYNP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07276", "url": "https://www.uniprot.org/uniprotkb/P07276" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" }, { "database": "SGD", "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser583" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "118", "end_pos": "118" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "680", "end_pos": "680" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P07276-1.575.575", "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": "P07276-1.621.621", "start_pos": 621, "end_pos": 621, "uniprot_canonical_ac": "P07276-1", "length": 1031, "uniprot_id": "RAD2_YEAST", "protein_name": "DNA repair protein RAD2", "refseq_ac": "NP_011774", "refseq_name": "ssDNA endodeoxyribonuclease RAD2", "gene_name": "RAD2", "gene_names_uniprotkb": "RAD2", "gene_names_refseq": "RAD2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07276", "url": "https://www.uniprot.org/uniprotkb/P07276" } ], "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": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "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": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490", "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": "YNPYNTTNFVEDKNVRNEQE", "down_seq": "GAETTNKGSSYELLTGLNAT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser621" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "118", "end_pos": "118" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "680", "end_pos": "680" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "upstream", "id": "P07276-1.631.631", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07276-1.631.631", "start_pos": 631, "end_pos": 631, "uniprot_canonical_ac": "P07276-1", "length": 1031, "uniprot_id": "RAD2_YEAST", "protein_name": "DNA repair protein RAD2", "refseq_ac": "NP_011774", "refseq_name": "ssDNA endodeoxyribonuclease RAD2", "gene_name": "RAD2", "gene_names_uniprotkb": "RAD2", "gene_names_refseq": "RAD2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07276", "url": "https://www.uniprot.org/uniprotkb/P07276" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EDKNVRNEQESGAETTNKGS", "down_seq": "YELLTGLNATEILERESEKE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490" }, { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser631" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "118", "end_pos": "118" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "680", "end_pos": "680" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P07276-1.621.621", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07276-1.666.666", "start_pos": 666, "end_pos": 666, "uniprot_canonical_ac": "P07276-1", "length": 1031, "uniprot_id": "RAD2_YEAST", "protein_name": "DNA repair protein RAD2", "refseq_ac": "NP_011774", "refseq_name": "ssDNA endodeoxyribonuclease RAD2", "gene_name": "RAD2", "gene_names_uniprotkb": "RAD2", "gene_names_refseq": "RAD2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07276", "url": "https://www.uniprot.org/uniprotkb/P07276" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RESEKESSNDENKDDDLEVL", "down_seq": "EELFEDVPTKSQISKEAEDN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490" }, { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser666" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "118", "end_pos": "118" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "680", "end_pos": "680" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "upstream", "id": "P07276-1.680.680", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07276-1.680.680", "start_pos": 680, "end_pos": 680, "uniprot_canonical_ac": "P07276-1", "length": 1031, "uniprot_id": "RAD2_YEAST", "protein_name": "DNA repair protein RAD2", "refseq_ac": "NP_011774", "refseq_name": "ssDNA endodeoxyribonuclease RAD2", "gene_name": "RAD2", "gene_names_uniprotkb": "RAD2", "gene_names_refseq": "RAD2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07276", "url": "https://www.uniprot.org/uniprotkb/P07276" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "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": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276", "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": "DDLEVLSEELFEDVPTKSQI", "down_seq": "KEAEDNDSRKVESINKEHRK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003490", "url": "https://www.yeastgenome.org/locus/S000003490" }, { "database": "iPTMnet", "id": "P07276", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07276" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser680" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "118", "end_pos": "118" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "680", "end_pos": "680" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P07276-1.666.666", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07277-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P07277-1", "length": 443, "uniprot_id": "ERG12_YEAST", "protein_name": "Mevalonate kinase", "refseq_ac": "NP_013935", "refseq_name": "mevalonate kinase", "gene_name": "ERG12", "gene_names_uniprotkb": "ERG12; RAR1; YM8261.02", "gene_names_refseq": "ERG12; RAR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07277", "url": "https://www.uniprot.org/uniprotkb/P07277" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07277" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004821", "url": "https://www.yeastgenome.org/locus/S000004821", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07277", "database": "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": "LPFLTSAPGKVIIFGEHSAV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004821", "url": "https://www.yeastgenome.org/locus/S000004821" }, { "database": "iPTMnet", "id": "P07277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07277" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "64", "end_pos": "64" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07277-1.64.64", "start_pos": 64, "end_pos": 64, "uniprot_canonical_ac": "P07277-1", "length": 443, "uniprot_id": "ERG12_YEAST", "protein_name": "Mevalonate kinase", "refseq_ac": "NP_013935", "refseq_name": "mevalonate kinase", "gene_name": "ERG12", "gene_names_uniprotkb": "ERG12; RAR1; YM8261.02", "gene_names_refseq": "ERG12; RAR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07277", "url": "https://www.uniprot.org/uniprotkb/P07277" } ], "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": "P07277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07277" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P07277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07277", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004821", "url": "https://www.yeastgenome.org/locus/S000004821", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SSAPDTIELDFPDISFNHKW", "down_seq": "INDFNAITEDQVNSQKLAKA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07277" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000004821", "url": "https://www.yeastgenome.org/locus/S000004821" } ], "site_lbl": "Ser64" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "64", "end_pos": "64" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07278-1.129.129", "start_pos": 129, "end_pos": 129, "uniprot_canonical_ac": "P07278-1", "length": 416, "uniprot_id": "KAPR_YEAST", "protein_name": "cAMP-dependent protein kinase regulatory subunit", "refseq_ac": "NP_012231", "refseq_name": "cAMP-dependent protein kinase regulatory subunit BCY1", "gene_name": "BCY1", "gene_names_uniprotkb": "BCY1; REG1; SRA1", "gene_names_refseq": "BCY1; SRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" } ], "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "PHEQDTHQQAQEEQQHTREK", "down_seq": "STPPLPMHFNAQRRTSVSGE", "mutagenesis": [ { "sequence_org": "T", "sequence_mut": "D", "comment": "Confers increased sensitivity to rapamycin and enhanced accumulation of glycogen upon TORC1 inhibition.", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "Q00772-1", "kinase_gene_name": "SLT2", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ], "site_lbl": "Thr129" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295" }, { "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": "Thr129" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "129", "end_pos": "129" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "98", "end_pos": "98" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "mutagenesis_flag", "phosphorylation_flag" ], "glycosylation": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P07278-1.130.130", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07278-1.131.131", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07278-1.144.144", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P07278-1.145.145", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P07278-1.147.147", "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": 2 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07278-1.130.130", "start_pos": 130, "end_pos": 130, "uniprot_canonical_ac": "P07278-1", "length": 416, "uniprot_id": "KAPR_YEAST", "protein_name": "cAMP-dependent protein kinase regulatory subunit", "refseq_ac": "NP_012231", "refseq_name": "cAMP-dependent protein kinase regulatory subunit BCY1", "gene_name": "BCY1", "gene_names_uniprotkb": "BCY1; REG1; SRA1", "gene_names_refseq": "BCY1; SRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" } ], "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295", "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": "HEQDTHQQAQEEQQHTREKT", "down_seq": "TPPLPMHFNAQRRTSVSGET", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" }, { "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": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295" }, { "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": "Ser130" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "129", "end_pos": "129" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "98", "end_pos": "98" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P07278-1.129.129", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07278-1.131.131", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07278-1.144.144", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07278-1.145.145", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P07278-1.147.147", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07278-1.150.150", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07278-1.131.131", "start_pos": 131, "end_pos": 131, "uniprot_canonical_ac": "P07278-1", "length": 416, "uniprot_id": "KAPR_YEAST", "protein_name": "cAMP-dependent protein kinase regulatory subunit", "refseq_ac": "NP_012231", "refseq_name": "cAMP-dependent protein kinase regulatory subunit BCY1", "gene_name": "BCY1", "gene_names_uniprotkb": "BCY1; REG1; SRA1", "gene_names_refseq": "BCY1; SRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" } ], "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278", "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": "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": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295", "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": "T", "start_aa": "T", "up_seq": "EQDTHQQAQEEQQHTREKTS", "down_seq": "PPLPMHFNAQRRTSVSGETL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" }, { "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": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295" }, { "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": "Thr131" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "129", "end_pos": "129" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "98", "end_pos": "98" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07278-1.129.129", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07278-1.130.130", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07278-1.144.144", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07278-1.145.145", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P07278-1.147.147", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P07278-1.150.150", "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": 11 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07278-1.144.144", "start_pos": 144, "end_pos": 144, "uniprot_canonical_ac": "P07278-1", "length": 416, "uniprot_id": "KAPR_YEAST", "protein_name": "cAMP-dependent protein kinase regulatory subunit", "refseq_ac": "NP_012231", "refseq_name": "cAMP-dependent protein kinase regulatory subunit BCY1", "gene_name": "BCY1", "gene_names_uniprotkb": "BCY1; REG1; SRA1", "gene_names_refseq": "BCY1; SRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" } ], "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "J. Proteome Res.", "date": "2007", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278", "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": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295", "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": "HTREKTSTPPLPMHFNAQRR", "down_seq": "SVSGETLQPNNFDDWTPDHY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" }, { "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": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "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": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr144" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "129", "end_pos": "129" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "98", "end_pos": "98" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P07278-1.129.129", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P07278-1.130.130", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P07278-1.131.131", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07278-1.145.145", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07278-1.147.147", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07278-1.150.150", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P07278-1.160.160", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07278-1.145.145", "start_pos": 145, "end_pos": 145, "uniprot_canonical_ac": "P07278-1", "length": 416, "uniprot_id": "KAPR_YEAST", "protein_name": "cAMP-dependent protein kinase regulatory subunit", "refseq_ac": "NP_012231", "refseq_name": "cAMP-dependent protein kinase regulatory subunit BCY1", "gene_name": "BCY1", "gene_names_uniprotkb": "BCY1; REG1; SRA1", "gene_names_refseq": "BCY1; SRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" } ], "common_name": "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "J. Proteome Res.", "date": "2007", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Nutrient control of yeast PKA activity involves opposing effects on phosphorylation of the Bcy1 regulatory subunit.", "journal": "Molecular biology of the cell", "date": "2010-11-01", "authors": "Budhwar Roli, Lu Ailan, Hirsch Jeanne P", "evidence": [ { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "20826609", "url": "https://glygen.org/publication/PubMed/20826609" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Bcy1, the regulatory subunit of cAMP-dependent protein kinase in yeast, is differentially modified in response to the physiological status of the cell.", "journal": "The Journal of biological chemistry", "date": "1991-10-15", "authors": "Werner-Washburne M, Brown D, Braun E", "evidence": [ { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "1655793", "url": "https://glygen.org/publication/PubMed/1655793" } ] }, { "title": "Kelch repeat proteins control yeast PKA activity in response to nutrient availability.", "journal": "Cell cycle (Georgetown, Tex.)", "date": "2011-03-01", "authors": "Budhwar Roli, Fang Guoqiang, Hirsch Jeanne P", "evidence": [ { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "21311222", "url": "https://glygen.org/publication/PubMed/21311222" } ] }, { "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "title": "Cloning and characterization of BCY1, a locus encoding a regulatory subunit of the cyclic AMP-dependent protein kinase in Saccharomyces cerevisiae.", "journal": "Molecular and cellular biology", "date": "1987-04", "authors": "Toda T, Cameron S, Sass P, Zoller M, Scott J D, McMullen B, Hurwitz M, Krebs E G, Wigler M", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "3037314", "url": "https://glygen.org/publication/PubMed/3037314" } ] } ], "crossref": [ { "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278", "database": "iPTMnet", "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": "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": "20826609", "url": "https://glygen.org/publication/PubMed/20826609", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "1655793", "url": "https://glygen.org/publication/PubMed/1655793", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "21311222", "url": "https://glygen.org/publication/PubMed/21311222", "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": "3037314", "url": "https://glygen.org/publication/PubMed/3037314", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TREKTSTPPLPMHFNAQRRT", "down_seq": "VSGETLQPNNFDDWTPDHYK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P07278-1", "kinase_gene_name": "BCY1", "residue": "Ser", "comment": "", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ], "site_lbl": "Ser145" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine; by autocatalysis", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" }, { "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": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "20826609", "url": "https://glygen.org/publication/PubMed/20826609" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "PubMed", "id": "1655793", "url": "https://glygen.org/publication/PubMed/1655793" }, { "database": "SGD", "id": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295" }, { "database": "PubMed", "id": "21311222", "url": "https://glygen.org/publication/PubMed/21311222" }, { "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": "3037314", "url": "https://glygen.org/publication/PubMed/3037314" } ], "site_lbl": "Ser145" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "129", "end_pos": "129" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "98", "end_pos": "98" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P07278-1.129.129", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P07278-1.130.130", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P07278-1.131.131", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07278-1.144.144", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07278-1.147.147", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07278-1.150.150", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07278-1.160.160", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 14 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07278-1.147.147", "start_pos": 147, "end_pos": 147, "uniprot_canonical_ac": "P07278-1", "length": 416, "uniprot_id": "KAPR_YEAST", "protein_name": "cAMP-dependent protein kinase regulatory subunit", "refseq_ac": "NP_012231", "refseq_name": "cAMP-dependent protein kinase regulatory subunit BCY1", "gene_name": "BCY1", "gene_names_uniprotkb": "BCY1; REG1; SRA1", "gene_names_refseq": "BCY1; SRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" } ], "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EKTSTPPLPMHFNAQRRTSV", "down_seq": "GETLQPNNFDDWTPDHYKEK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser147" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "129", "end_pos": "129" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "98", "end_pos": "98" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P07278-1.129.129", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P07278-1.130.130", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P07278-1.131.131", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07278-1.144.144", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07278-1.145.145", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07278-1.150.150", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07278-1.160.160", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07278-1.150.150", "start_pos": 150, "end_pos": 150, "uniprot_canonical_ac": "P07278-1", "length": 416, "uniprot_id": "KAPR_YEAST", "protein_name": "cAMP-dependent protein kinase regulatory subunit", "refseq_ac": "NP_012231", "refseq_name": "cAMP-dependent protein kinase regulatory subunit BCY1", "gene_name": "BCY1", "gene_names_uniprotkb": "BCY1; REG1; SRA1", "gene_names_refseq": "BCY1; SRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" } ], "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "STPPLPMHFNAQRRTSVSGE", "down_seq": "LQPNNFDDWTPDHYKEKSEQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" }, { "database": "SGD", "id": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295" } ], "site_lbl": "Thr150" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "129", "end_pos": "129" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "98", "end_pos": "98" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07278-1.130.130", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P07278-1.131.131", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07278-1.144.144", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07278-1.145.145", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07278-1.147.147", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07278-1.160.160", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P07278-1.168.168", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07278-1.160.160", "start_pos": 160, "end_pos": 160, "uniprot_canonical_ac": "P07278-1", "length": 416, "uniprot_id": "KAPR_YEAST", "protein_name": "cAMP-dependent protein kinase regulatory subunit", "refseq_ac": "NP_012231", "refseq_name": "cAMP-dependent protein kinase regulatory subunit BCY1", "gene_name": "BCY1", "gene_names_uniprotkb": "BCY1; REG1; SRA1", "gene_names_refseq": "BCY1; SRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" } ], "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] } ], "crossref": [ { "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "AQRRTSVSGETLQPNNFDDW", "down_seq": "PDHYKEKSEQQLQRLEKSIR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "site_lbl": "Thr160" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "129", "end_pos": "129" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "98", "end_pos": "98" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P07278-1.144.144", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P07278-1.145.145", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P07278-1.147.147", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P07278-1.150.150", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07278-1.168.168", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07278-1.168.168", "start_pos": 168, "end_pos": 168, "uniprot_canonical_ac": "P07278-1", "length": 416, "uniprot_id": "KAPR_YEAST", "protein_name": "cAMP-dependent protein kinase regulatory subunit", "refseq_ac": "NP_012231", "refseq_name": "cAMP-dependent protein kinase regulatory subunit BCY1", "gene_name": "BCY1", "gene_names_uniprotkb": "BCY1; REG1; SRA1", "gene_names_refseq": "BCY1; SRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GETLQPNNFDDWTPDHYKEK", "down_seq": "EQQLQRLEKSIRNNFLFNKL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser168" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "129", "end_pos": "129" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "98", "end_pos": "98" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P07278-1.150.150", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07278-1.160.160", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07278-1.286.286", "start_pos": 286, "end_pos": 286, "uniprot_canonical_ac": "P07278-1", "length": 416, "uniprot_id": "KAPR_YEAST", "protein_name": "cAMP-dependent protein kinase regulatory subunit", "refseq_ac": "NP_012231", "refseq_name": "cAMP-dependent protein kinase regulatory subunit BCY1", "gene_name": "BCY1", "gene_names_uniprotkb": "BCY1; REG1; SRA1", "gene_names_refseq": "BCY1; SRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" } ], "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SDCLLWALDRLTFRKILLGS", "down_seq": "FKKRLMYDDLLKSMPVLKSL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser286" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "129", "end_pos": "129" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "98", "end_pos": "98" }, { "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": "P07278-1.308.308", "start_pos": 308, "end_pos": 308, "uniprot_canonical_ac": "P07278-1", "length": 416, "uniprot_id": "KAPR_YEAST", "protein_name": "cAMP-dependent protein kinase regulatory subunit", "refseq_ac": "NP_012231", "refseq_name": "cAMP-dependent protein kinase regulatory subunit BCY1", "gene_name": "BCY1", "gene_names_uniprotkb": "BCY1; REG1; SRA1", "gene_names_refseq": "BCY1; SRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278", "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": "KKRLMYDDLLKSMPVLKSLT", "down_seq": "YDRAKLADALDTKIYQPGET", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr308" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "129", "end_pos": "129" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "98", "end_pos": "98" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "upstream", "id": "P07278-1.320.320", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07278-1.320.320", "start_pos": 320, "end_pos": 320, "uniprot_canonical_ac": "P07278-1", "length": 416, "uniprot_id": "KAPR_YEAST", "protein_name": "cAMP-dependent protein kinase regulatory subunit", "refseq_ac": "NP_012231", "refseq_name": "cAMP-dependent protein kinase regulatory subunit BCY1", "gene_name": "BCY1", "gene_names_uniprotkb": "BCY1; REG1; SRA1", "gene_names_refseq": "BCY1; SRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278", "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": "MPVLKSLTTYDRAKLADALD", "down_seq": "KIYQPGETIIREGDQGENFY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr320" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "129", "end_pos": "129" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "98", "end_pos": "98" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P07278-1.308.308", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07278-1.3.3", "start_pos": 3, "end_pos": 3, "uniprot_canonical_ac": "P07278-1", "length": 416, "uniprot_id": "KAPR_YEAST", "protein_name": "cAMP-dependent protein kinase regulatory subunit", "refseq_ac": "NP_012231", "refseq_name": "cAMP-dependent protein kinase regulatory subunit BCY1", "gene_name": "BCY1", "gene_names_uniprotkb": "BCY1; REG1; SRA1", "gene_names_refseq": "BCY1; SRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MV", "down_seq": "SLPKESQAELQLFQNEINAA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" } ], "site_lbl": "Ser3" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "129", "end_pos": "129" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "98", "end_pos": "98" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P07278-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07278-1.9.9", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "P07278-1.4.4", "start_pos": 4, "end_pos": 4, "uniprot_canonical_ac": "P07278-1", "length": 416, "uniprot_id": "KAPR_YEAST", "protein_name": "cAMP-dependent protein kinase regulatory subunit", "refseq_ac": "NP_012231", "refseq_name": "cAMP-dependent protein kinase regulatory subunit BCY1", "gene_name": "BCY1", "gene_names_uniprotkb": "BCY1; REG1; SRA1", "gene_names_refseq": "BCY1; SRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278", "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": "MVS", "down_seq": "LPKESQAELQLFQNEINAAN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "SGD", "id": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser4" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "129", "end_pos": "129" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "98", "end_pos": "98" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P07278-1.3.3", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07278-1.9.9", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07278-1.68.68", "start_pos": 68, "end_pos": 68, "uniprot_canonical_ac": "P07278-1", "length": 416, "uniprot_id": "KAPR_YEAST", "protein_name": "cAMP-dependent protein kinase regulatory subunit", "refseq_ac": "NP_012231", "refseq_name": "cAMP-dependent protein kinase regulatory subunit BCY1", "gene_name": "BCY1", "gene_names_uniprotkb": "BCY1; REG1; SRA1", "gene_names_refseq": "BCY1; SRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" } ], "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Nucleocytoplasmic distribution of budding yeast protein kinase A regulatory subunit Bcy1 requires Zds1 and is regulated by Yak1-dependent phosphorylation of its targeting domain.", "journal": "Molecular and cellular biology", "date": "2001-01", "authors": "Griffioen G, Branduardi P, Ballarini A, Anghileri P, Norbeck J, Baroni M D, Ruis H", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "11134339", "url": "https://glygen.org/publication/PubMed/11134339" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ] } ], "crossref": [ { "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "11134339", "url": "https://glygen.org/publication/PubMed/11134339", "database": "PubMed", "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" ] }, { "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KAREPEFKAKNIVLFPEPEE", "down_seq": "FSRPQSAQSQSRSRSSVMFK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295" }, { "database": "PubMed", "id": "11134339", "url": "https://glygen.org/publication/PubMed/11134339" }, { "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" }, { "database": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ], "site_lbl": "Ser68" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "129", "end_pos": "129" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "98", "end_pos": "98" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P07278-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07278-1.74.74", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07278-1.77.77", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07278-1.79.79", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07278-1.81.81", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07278-1.83.83", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P07278-1.84.84", "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": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07278-1.70.70", "start_pos": 70, "end_pos": 70, "uniprot_canonical_ac": "P07278-1", "length": 416, "uniprot_id": "KAPR_YEAST", "protein_name": "cAMP-dependent protein kinase regulatory subunit", "refseq_ac": "NP_012231", "refseq_name": "cAMP-dependent protein kinase regulatory subunit BCY1", "gene_name": "BCY1", "gene_names_uniprotkb": "BCY1; REG1; SRA1", "gene_names_refseq": "BCY1; SRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" } ], "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Nucleocytoplasmic distribution of budding yeast protein kinase A regulatory subunit Bcy1 requires Zds1 and is regulated by Yak1-dependent phosphorylation of its targeting domain.", "journal": "Molecular and cellular biology", "date": "2001-01", "authors": "Griffioen G, Branduardi P, Ballarini A, Anghileri P, Norbeck J, Baroni M D, Ruis H", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "11134339", "url": "https://glygen.org/publication/PubMed/11134339" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ] } ], "crossref": [ { "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278", "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": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "11134339", "url": "https://glygen.org/publication/PubMed/11134339", "database": "PubMed", "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" ] }, { "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "REPEFKAKNIVLFPEPEESF", "down_seq": "RPQSAQSQSRSRSSVMFKSP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" }, { "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": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295" }, { "database": "PubMed", "id": "11134339", "url": "https://glygen.org/publication/PubMed/11134339" }, { "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" }, { "database": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ], "site_lbl": "Ser70" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "129", "end_pos": "129" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "98", "end_pos": "98" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07278-1.68.68", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07278-1.74.74", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07278-1.77.77", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07278-1.79.79", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07278-1.81.81", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07278-1.83.83", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07278-1.84.84", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P07278-1.89.89", "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": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07278-1.74.74", "start_pos": 74, "end_pos": 74, "uniprot_canonical_ac": "P07278-1", "length": 416, "uniprot_id": "KAPR_YEAST", "protein_name": "cAMP-dependent protein kinase regulatory subunit", "refseq_ac": "NP_012231", "refseq_name": "cAMP-dependent protein kinase regulatory subunit BCY1", "gene_name": "BCY1", "gene_names_uniprotkb": "BCY1; REG1; SRA1", "gene_names_refseq": "BCY1; SRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" } ], "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295", "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": "FKAKNIVLFPEPEESFSRPQ", "down_seq": "AQSQSRSRSSVMFKSPFVNE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" }, { "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295" }, { "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": "Ser74" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "129", "end_pos": "129" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "98", "end_pos": "98" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P07278-1.68.68", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07278-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07278-1.77.77", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07278-1.79.79", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07278-1.81.81", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07278-1.83.83", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07278-1.84.84", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07278-1.89.89", "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": 11 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07278-1.77.77", "start_pos": 77, "end_pos": 77, "uniprot_canonical_ac": "P07278-1", "length": 416, "uniprot_id": "KAPR_YEAST", "protein_name": "cAMP-dependent protein kinase regulatory subunit", "refseq_ac": "NP_012231", "refseq_name": "cAMP-dependent protein kinase regulatory subunit BCY1", "gene_name": "BCY1", "gene_names_uniprotkb": "BCY1; REG1; SRA1", "gene_names_refseq": "BCY1; SRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" } ], "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278", "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": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KNIVLFPEPEESFSRPQSAQ", "down_seq": "QSRSRSSVMFKSPFVNEDPH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" }, { "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": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser77" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "129", "end_pos": "129" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "98", "end_pos": "98" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P07278-1.68.68", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P07278-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07278-1.74.74", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07278-1.79.79", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07278-1.81.81", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07278-1.83.83", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07278-1.84.84", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P07278-1.89.89", "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": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07278-1.79.79", "start_pos": 79, "end_pos": 79, "uniprot_canonical_ac": "P07278-1", "length": 416, "uniprot_id": "KAPR_YEAST", "protein_name": "cAMP-dependent protein kinase regulatory subunit", "refseq_ac": "NP_012231", "refseq_name": "cAMP-dependent protein kinase regulatory subunit BCY1", "gene_name": "BCY1", "gene_names_uniprotkb": "BCY1; REG1; SRA1", "gene_names_refseq": "BCY1; SRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" } ], "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278", "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": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295", "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": "IVLFPEPEESFSRPQSAQSQ", "down_seq": "RSRSSVMFKSPFVNEDPHSN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" }, { "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": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295" }, { "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": "Ser79" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "129", "end_pos": "129" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "98", "end_pos": "98" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P07278-1.68.68", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P07278-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07278-1.74.74", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07278-1.77.77", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07278-1.81.81", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07278-1.83.83", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07278-1.84.84", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07278-1.89.89", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P07278-1.98.98", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07278-1.81.81", "start_pos": 81, "end_pos": 81, "uniprot_canonical_ac": "P07278-1", "length": 416, "uniprot_id": "KAPR_YEAST", "protein_name": "cAMP-dependent protein kinase regulatory subunit", "refseq_ac": "NP_012231", "refseq_name": "cAMP-dependent protein kinase regulatory subunit BCY1", "gene_name": "BCY1", "gene_names_uniprotkb": "BCY1; REG1; SRA1", "gene_names_refseq": "BCY1; SRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" } ], "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] } ], "crossref": [ { "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LFPEPEESFSRPQSAQSQSR", "down_seq": "RSSVMFKSPFVNEDPHSNVF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" }, { "database": "SGD", "id": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295" } ], "site_lbl": "Ser81" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "129", "end_pos": "129" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "98", "end_pos": "98" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P07278-1.68.68", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P07278-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P07278-1.74.74", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07278-1.77.77", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07278-1.79.79", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07278-1.83.83", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07278-1.84.84", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07278-1.89.89", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P07278-1.98.98", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07278-1.83.83", "start_pos": 83, "end_pos": 83, "uniprot_canonical_ac": "P07278-1", "length": 416, "uniprot_id": "KAPR_YEAST", "protein_name": "cAMP-dependent protein kinase regulatory subunit", "refseq_ac": "NP_012231", "refseq_name": "cAMP-dependent protein kinase regulatory subunit BCY1", "gene_name": "BCY1", "gene_names_uniprotkb": "BCY1; REG1; SRA1", "gene_names_refseq": "BCY1; SRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" } ], "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295", "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": "PEPEESFSRPQSAQSQSRSR", "down_seq": "SVMFKSPFVNEDPHSNVFKS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295" }, { "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": "Ser83" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "129", "end_pos": "129" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "98", "end_pos": "98" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P07278-1.68.68", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P07278-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P07278-1.74.74", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07278-1.77.77", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07278-1.79.79", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07278-1.81.81", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07278-1.84.84", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07278-1.89.89", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07278-1.98.98", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 12 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07278-1.84.84", "start_pos": 84, "end_pos": 84, "uniprot_canonical_ac": "P07278-1", "length": 416, "uniprot_id": "KAPR_YEAST", "protein_name": "cAMP-dependent protein kinase regulatory subunit", "refseq_ac": "NP_012231", "refseq_name": "cAMP-dependent protein kinase regulatory subunit BCY1", "gene_name": "BCY1", "gene_names_uniprotkb": "BCY1; REG1; SRA1", "gene_names_refseq": "BCY1; SRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" } ], "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": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278", "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": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295", "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": "EPEESFSRPQSAQSQSRSRS", "down_seq": "VMFKSPFVNEDPHSNVFKSG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" }, { "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": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295" }, { "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": "mutagenesis", "site_list": [ { "start_pos": "129", "end_pos": "129" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "98", "end_pos": "98" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P07278-1.68.68", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P07278-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P07278-1.74.74", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P07278-1.77.77", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07278-1.79.79", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07278-1.81.81", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07278-1.83.83", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07278-1.89.89", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07278-1.98.98", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07278-1.89.89", "start_pos": 89, "end_pos": 89, "uniprot_canonical_ac": "P07278-1", "length": 416, "uniprot_id": "KAPR_YEAST", "protein_name": "cAMP-dependent protein kinase regulatory subunit", "refseq_ac": "NP_012231", "refseq_name": "cAMP-dependent protein kinase regulatory subunit BCY1", "gene_name": "BCY1", "gene_names_uniprotkb": "BCY1; REG1; SRA1", "gene_names_refseq": "BCY1; SRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295", "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": "FSRPQSAQSQSRSRSSVMFK", "down_seq": "PFVNEDPHSNVFKSGFNLDP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser89" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "129", "end_pos": "129" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "98", "end_pos": "98" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P07278-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P07278-1.74.74", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P07278-1.77.77", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P07278-1.79.79", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07278-1.81.81", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07278-1.83.83", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07278-1.84.84", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07278-1.98.98", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07278-1.98.98", "start_pos": 98, "end_pos": 98, "uniprot_canonical_ac": "P07278-1", "length": 416, "uniprot_id": "KAPR_YEAST", "protein_name": "cAMP-dependent protein kinase regulatory subunit", "refseq_ac": "NP_012231", "refseq_name": "cAMP-dependent protein kinase regulatory subunit BCY1", "gene_name": "BCY1", "gene_names_uniprotkb": "BCY1; REG1; SRA1", "gene_names_refseq": "BCY1; SRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "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": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278", "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": "QSRSRSSVMFKSPFVNEDPH", "down_seq": "NVFKSGFNLDPHEQDTHQQA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001295", "url": "https://www.yeastgenome.org/locus/S000001295" }, { "database": "iPTMnet", "id": "P07278", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07278" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser98" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "129", "end_pos": "129" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "98", "end_pos": "98" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P07278-1.79.79", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P07278-1.81.81", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P07278-1.83.83", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P07278-1.84.84", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P07278-1.89.89", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07278-1.9.9", "start_pos": 9, "end_pos": 9, "uniprot_canonical_ac": "P07278-1", "length": 416, "uniprot_id": "KAPR_YEAST", "protein_name": "cAMP-dependent protein kinase regulatory subunit", "refseq_ac": "NP_012231", "refseq_name": "cAMP-dependent protein kinase regulatory subunit BCY1", "gene_name": "BCY1", "gene_names_uniprotkb": "BCY1; REG1; SRA1", "gene_names_refseq": "BCY1; SRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MVSSLPKE", "down_seq": "QAELQLFQNEINAANPSDFL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07278", "url": "https://www.uniprot.org/uniprotkb/P07278" } ], "site_lbl": "Ser9" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "129", "end_pos": "129" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "98", "end_pos": "98" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P07278-1.3.3", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07278-1.4.4", "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": 0 } ], "sort_fields": [] } ] }, { "id": "P07280-1.102.102", "start_pos": 102, "end_pos": 102, "uniprot_canonical_ac": "P07280-1", "length": 144, "uniprot_id": "RS19A_YEAST", "protein_name": "Small ribosomal subunit protein eS19A", "refseq_ac": "NP_014520", "refseq_name": "40S ribosomal protein eS19 RPS19A", "gene_name": "RPS19A", "gene_names_uniprotkb": "RPS19A; RP55A; RPS16AA", "gene_names_refseq": "RPS19A", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07280", "url": "https://www.uniprot.org/uniprotkb/P07280" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Molecular basis of Diamond-Blackfan anemia: structure and function analysis of RPS19.", "journal": "Nucleic acids research", "date": "2007", "authors": "Gregory Lynn A, Aguissa-Tour\u00e9 Almass-Houd, Pinaud No\u00ebl, Legrand Pierre, Gleizes Pierre-Emmanuel, Fribourg S\u00e9bastien", "evidence": [ { "database": "UniProtKB", "id": "P07280", "url": "https://www.uniprot.org/uniprotkb/P07280" } ], "reference": [ { "type": "PubMed", "id": "17726054", "url": "https://glygen.org/publication/PubMed/17726054" } ] } ], "crossref": [ { "id": "P07280", "url": "https://www.uniprot.org/uniprotkb/P07280", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17726054", "url": "https://glygen.org/publication/PubMed/17726054", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "GAKSRGVRPYKHIDASGSIN", "down_seq": "KVLQALEKIGIVEISPKGGR", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "E", "comment": "Decreases mature 18S rRNA, protein binds 20S pre-RNA complex poorly. Lethal in double RPS19A/RPS19B mutant.", "evidence": [ { "database": "UniProtKB", "id": "P07280", "url": "https://www.uniprot.org/uniprotkb/P07280" }, { "database": "PubMed", "id": "17726054", "url": "https://glygen.org/publication/PubMed/17726054" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "65", "end_pos": "65" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "upstream", "id": "P07280-1.117.117", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07280-1.122.122", "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": "P07280-1.122.122", "start_pos": 122, "end_pos": 122, "uniprot_canonical_ac": "P07280-1", "length": 144, "uniprot_id": "RS19A_YEAST", "protein_name": "Small ribosomal subunit protein eS19A", "refseq_ac": "NP_014520", "refseq_name": "40S ribosomal protein eS19 RPS19A", "gene_name": "RPS19A", "gene_names_uniprotkb": "RPS19A; RP55A; RPS16AA", "gene_names_refseq": "RPS19A", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07280", "url": "https://www.uniprot.org/uniprotkb/P07280" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Molecular basis of Diamond-Blackfan anemia: structure and function analysis of RPS19.", "journal": "Nucleic acids research", "date": "2007", "authors": "Gregory Lynn A, Aguissa-Tour\u00e9 Almass-Houd, Pinaud No\u00ebl, Legrand Pierre, Gleizes Pierre-Emmanuel, Fribourg S\u00e9bastien", "evidence": [ { "database": "UniProtKB", "id": "P07280", "url": "https://www.uniprot.org/uniprotkb/P07280" } ], "reference": [ { "type": "PubMed", "id": "17726054", "url": "https://glygen.org/publication/PubMed/17726054" } ] } ], "crossref": [ { "id": "P07280", "url": "https://www.uniprot.org/uniprotkb/P07280", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17726054", "url": "https://glygen.org/publication/PubMed/17726054", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "RKVLQALEKIGIVEISPKGG", "down_seq": "RISENGQRDLDRIAAQTLEE", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "E", "comment": "Decreases mature 18S rRNA, protein binds 20S pre-RNA complex poorly. Lethal in double RPS19A/RPS19B mutant.", "evidence": [ { "database": "UniProtKB", "id": "P07280", "url": "https://www.uniprot.org/uniprotkb/P07280" }, { "database": "PubMed", "id": "17726054", "url": "https://glygen.org/publication/PubMed/17726054" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "65", "end_pos": "65" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07280-1.102.102", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07280-1.117.117", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07280-1.125.125", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P07280-1.139.139", "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": "P07280-1.15.15", "start_pos": 15, "end_pos": 15, "uniprot_canonical_ac": "P07280-1", "length": 144, "uniprot_id": "RS19A_YEAST", "protein_name": "Small ribosomal subunit protein eS19A", "refseq_ac": "NP_014520", "refseq_name": "40S ribosomal protein eS19 RPS19A", "gene_name": "RPS19A", "gene_names_uniprotkb": "RPS19A; RP55A; RPS16AA", "gene_names_refseq": "RPS19A", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07280", "url": "https://www.uniprot.org/uniprotkb/P07280" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Molecular basis of Diamond-Blackfan anemia: structure and function analysis of RPS19.", "journal": "Nucleic acids research", "date": "2007", "authors": "Gregory Lynn A, Aguissa-Tour\u00e9 Almass-Houd, Pinaud No\u00ebl, Legrand Pierre, Gleizes Pierre-Emmanuel, Fribourg S\u00e9bastien", "evidence": [ { "database": "UniProtKB", "id": "P07280", "url": "https://www.uniprot.org/uniprotkb/P07280" } ], "reference": [ { "type": "PubMed", "id": "17726054", "url": "https://glygen.org/publication/PubMed/17726054" } ] } ], "crossref": [ { "id": "P07280", "url": "https://www.uniprot.org/uniprotkb/P07280", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17726054", "url": "https://glygen.org/publication/PubMed/17726054", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "I", "start_aa": "I", "up_seq": "MPGVSVRDVAAQDF", "down_seq": "NAYASFLQRQGKLEVPGYVD", "mutagenesis": [ { "sequence_org": "I", "sequence_mut": "F", "comment": "Partial loss of function; decreased 18S rRNA, decreases binding to 20S pre-rRNA complex, slow growth in double RPS19A/RPS19B mutant.", "evidence": [ { "database": "UniProtKB", "id": "P07280", "url": "https://www.uniprot.org/uniprotkb/P07280" }, { "database": "PubMed", "id": "17726054", "url": "https://glygen.org/publication/PubMed/17726054" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "65", "end_pos": "65" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P07280-1.5.5", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07280-1.18.18", "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": "P07280-1.57.57", "start_pos": 57, "end_pos": 57, "uniprot_canonical_ac": "P07280-1", "length": 144, "uniprot_id": "RS19A_YEAST", "protein_name": "Small ribosomal subunit protein eS19A", "refseq_ac": "NP_014520", "refseq_name": "40S ribosomal protein eS19 RPS19A", "gene_name": "RPS19A", "gene_names_uniprotkb": "RPS19A; RP55A; RPS16AA", "gene_names_refseq": "RPS19A", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07280", "url": "https://www.uniprot.org/uniprotkb/P07280" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Molecular basis of Diamond-Blackfan anemia: structure and function analysis of RPS19.", "journal": "Nucleic acids research", "date": "2007", "authors": "Gregory Lynn A, Aguissa-Tour\u00e9 Almass-Houd, Pinaud No\u00ebl, Legrand Pierre, Gleizes Pierre-Emmanuel, Fribourg S\u00e9bastien", "evidence": [ { "database": "UniProtKB", "id": "P07280", "url": "https://www.uniprot.org/uniprotkb/P07280" } ], "reference": [ { "type": "PubMed", "id": "17726054", "url": "https://glygen.org/publication/PubMed/17726054" } ] } ], "crossref": [ { "id": "P07280", "url": "https://www.uniprot.org/uniprotkb/P07280", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17726054", "url": "https://glygen.org/publication/PubMed/17726054", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "VKTSSGNEMPPQDAEGWFYK", "down_seq": "AASVARHIYMRKQVGVGKLN", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "E", "comment": "Loss of mature 18S rRNA, protein doesn't bind 20S pre-RNA complex. Lethal in double RPS19A/RPS19B mutant.", "evidence": [ { "database": "UniProtKB", "id": "P07280", "url": "https://www.uniprot.org/uniprotkb/P07280" }, { "database": "PubMed", "id": "17726054", "url": "https://glygen.org/publication/PubMed/17726054" } ] }, { "sequence_org": "R", "sequence_mut": "Q", "comment": "Loss of mature 18S rRNA, protein doesn't bind 20S pre-RNA complex. Lethal in double RPS19A/RPS19B mutant.", "evidence": [ { "database": "UniProtKB", "id": "P07280", "url": "https://www.uniprot.org/uniprotkb/P07280" }, { "database": "PubMed", "id": "17726054", "url": "https://glygen.org/publication/PubMed/17726054" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "65", "end_pos": "65" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P07280-1.63.63", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07280-1.65.65", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07280-1.63.63", "start_pos": 63, "end_pos": 63, "uniprot_canonical_ac": "P07280-1", "length": 144, "uniprot_id": "RS19A_YEAST", "protein_name": "Small ribosomal subunit protein eS19A", "refseq_ac": "NP_014520", "refseq_name": "40S ribosomal protein eS19 RPS19A", "gene_name": "RPS19A", "gene_names_uniprotkb": "RPS19A; RP55A; RPS16AA", "gene_names_refseq": "RPS19A", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07280", "url": "https://www.uniprot.org/uniprotkb/P07280" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Molecular basis of Diamond-Blackfan anemia: structure and function analysis of RPS19.", "journal": "Nucleic acids research", "date": "2007", "authors": "Gregory Lynn A, Aguissa-Tour\u00e9 Almass-Houd, Pinaud No\u00ebl, Legrand Pierre, Gleizes Pierre-Emmanuel, Fribourg S\u00e9bastien", "evidence": [ { "database": "UniProtKB", "id": "P07280", "url": "https://www.uniprot.org/uniprotkb/P07280" } ], "reference": [ { "type": "PubMed", "id": "17726054", "url": "https://glygen.org/publication/PubMed/17726054" } ] } ], "crossref": [ { "id": "P07280", "url": "https://www.uniprot.org/uniprotkb/P07280", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17726054", "url": "https://glygen.org/publication/PubMed/17726054", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "NEMPPQDAEGWFYKRAASVA", "down_seq": "HIYMRKQVGVGKLNKLYGGA", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "E", "comment": "Loss of mature 18S rRNA, protein binds 20S pre-RNA complex poorly. Lethal in double RPS19A/RPS19B mutant.", "evidence": [ { "database": "UniProtKB", "id": "P07280", "url": "https://www.uniprot.org/uniprotkb/P07280" }, { "database": "PubMed", "id": "17726054", "url": "https://glygen.org/publication/PubMed/17726054" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "65", "end_pos": "65" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P07280-1.57.57", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07280-1.65.65", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07280-1.65.65", "start_pos": 65, "end_pos": 65, "uniprot_canonical_ac": "P07280-1", "length": 144, "uniprot_id": "RS19A_YEAST", "protein_name": "Small ribosomal subunit protein eS19A", "refseq_ac": "NP_014520", "refseq_name": "40S ribosomal protein eS19 RPS19A", "gene_name": "RPS19A", "gene_names_uniprotkb": "RPS19A; RP55A; RPS16AA", "gene_names_refseq": "RPS19A", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07280", "url": "https://www.uniprot.org/uniprotkb/P07280" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Specific Role for Yeast Homologs of the Diamond Blackfan Anemia-associated Rps19 Protein in Ribosome Synthesis.", "journal": "The Journal of biological chemistry", "date": "2005-11-18", "authors": "L\u00e9ger-Silvestre Isabelle, Caffrey Jacqueline Marie, Dawaliby Rosy, Alvarez-Arias Diana Alehandrovna, Gas Nicole, Bertolone Salvatore J, Gleizes Pierre-Emmanuel, Ellis Steven Robert", "evidence": [ { "database": "UniProtKB", "id": "P07280", "url": "https://www.uniprot.org/uniprotkb/P07280" } ], "reference": [ { "type": "PubMed", "id": "16159874", "url": "https://glygen.org/publication/PubMed/16159874" } ] }, { "title": "Molecular basis of Diamond-Blackfan anemia: structure and function analysis of RPS19.", "journal": "Nucleic acids research", "date": "2007", "authors": "Gregory Lynn A, Aguissa-Tour\u00e9 Almass-Houd, Pinaud No\u00ebl, Legrand Pierre, Gleizes Pierre-Emmanuel, Fribourg S\u00e9bastien", "evidence": [ { "database": "UniProtKB", "id": "P07280", "url": "https://www.uniprot.org/uniprotkb/P07280" } ], "reference": [ { "type": "PubMed", "id": "17726054", "url": "https://glygen.org/publication/PubMed/17726054" } ] } ], "crossref": [ { "id": "P07280", "url": "https://www.uniprot.org/uniprotkb/P07280", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16159874", "url": "https://glygen.org/publication/PubMed/16159874", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17726054", "url": "https://glygen.org/publication/PubMed/17726054", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "I", "start_aa": "I", "up_seq": "MPPQDAEGWFYKRAASVARH", "down_seq": "YMRKQVGVGKLNKLYGGAKS", "mutagenesis": [ { "sequence_org": "I", "sequence_mut": "P", "comment": "Lethal in double RPS19A/RPS19B mutant, considerable decrease in 18S rRNA production.", "evidence": [ { "database": "UniProtKB", "id": "P07280", "url": "https://www.uniprot.org/uniprotkb/P07280" }, { "database": "PubMed", "id": "16159874", "url": "https://glygen.org/publication/PubMed/16159874" }, { "database": "PubMed", "id": "17726054", "url": "https://glygen.org/publication/PubMed/17726054" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "65", "end_pos": "65" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P07280-1.57.57", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07280-1.63.63", "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": "P07280-1.117.117", "start_pos": 117, "end_pos": 117, "uniprot_canonical_ac": "P07280-1", "length": 144, "uniprot_id": "RS19A_YEAST", "protein_name": "Small ribosomal subunit protein eS19A", "refseq_ac": "NP_014520", "refseq_name": "40S ribosomal protein eS19 RPS19A", "gene_name": "RPS19A", "gene_names_uniprotkb": "RPS19A; RP55A; RPS16AA", "gene_names_refseq": "RPS19A", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07280", "url": "https://www.uniprot.org/uniprotkb/P07280" } ], "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": "P07280", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07280" } ], "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": "P07280", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07280" } ], "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": "P07280", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07280" } ], "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": "P07280", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07280" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "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": "P07280", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07280" } ], "reference": [ { "type": "PubMed", "id": "27821475", "url": "https://glygen.org/publication/PubMed/27821475" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P07280", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07280" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "P07280", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07280", "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": "S000005481", "url": "https://www.yeastgenome.org/locus/S000005481", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "27821475", "url": "https://glygen.org/publication/PubMed/27821475", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SGSINRKVLQALEKIGIVEI", "down_seq": "PKGGRRISENGQRDLDRIAA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07280", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07280" }, { "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": "S000005481", "url": "https://www.yeastgenome.org/locus/S000005481" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "27821475", "url": "https://glygen.org/publication/PubMed/27821475" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser117" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "65", "end_pos": "65" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P07280-1.102.102", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07280-1.122.122", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07280-1.125.125", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07280-1.125.125", "start_pos": 125, "end_pos": 125, "uniprot_canonical_ac": "P07280-1", "length": 144, "uniprot_id": "RS19A_YEAST", "protein_name": "Small ribosomal subunit protein eS19A", "refseq_ac": "NP_014520", "refseq_name": "40S ribosomal protein eS19 RPS19A", "gene_name": "RPS19A", "gene_names_uniprotkb": "RPS19A; RP55A; RPS16AA", "gene_names_refseq": "RPS19A", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07280", "url": "https://www.uniprot.org/uniprotkb/P07280" } ], "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": "P07280", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07280" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000005481", "url": "https://www.yeastgenome.org/locus/S000005481", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07280", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07280", "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": "LQALEKIGIVEISPKGGRRI", "down_seq": "ENGQRDLDRIAAQTLEEDE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005481", "url": "https://www.yeastgenome.org/locus/S000005481" }, { "database": "iPTMnet", "id": "P07280", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07280" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser125" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "65", "end_pos": "65" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P07280-1.117.117", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07280-1.122.122", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07280-1.139.139", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07280-1.139.139", "start_pos": 139, "end_pos": 139, "uniprot_canonical_ac": "P07280-1", "length": 144, "uniprot_id": "RS19A_YEAST", "protein_name": "Small ribosomal subunit protein eS19A", "refseq_ac": "NP_014520", "refseq_name": "40S ribosomal protein eS19 RPS19A", "gene_name": "RPS19A", "gene_names_uniprotkb": "RPS19A; RP55A; RPS16AA", "gene_names_refseq": "RPS19A", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07280", "url": "https://www.uniprot.org/uniprotkb/P07280" } ], "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": "P07280", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07280" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P07280", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07280", "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": "KGGRRISENGQRDLDRIAAQ", "down_seq": "LEEDE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07280", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07280" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Thr139" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "65", "end_pos": "65" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P07280-1.122.122", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P07280-1.125.125", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07280-1.18.18", "start_pos": 18, "end_pos": 18, "uniprot_canonical_ac": "P07280-1", "length": 144, "uniprot_id": "RS19A_YEAST", "protein_name": "Small ribosomal subunit protein eS19A", "refseq_ac": "NP_014520", "refseq_name": "40S ribosomal protein eS19 RPS19A", "gene_name": "RPS19A", "gene_names_uniprotkb": "RPS19A; RP55A; RPS16AA", "gene_names_refseq": "RPS19A", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07280", "url": "https://www.uniprot.org/uniprotkb/P07280" } ], "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": "P07280", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07280" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P07280", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07280", "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": "MPGVSVRDVAAQDFINA", "down_seq": "ASFLQRQGKLEVPGYVDIVK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07280", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07280" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Tyr18" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "65", "end_pos": "65" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P07280-1.5.5", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07280-1.15.15", "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": "P07280-1.5.5", "start_pos": 5, "end_pos": 5, "uniprot_canonical_ac": "P07280-1", "length": 144, "uniprot_id": "RS19A_YEAST", "protein_name": "Small ribosomal subunit protein eS19A", "refseq_ac": "NP_014520", "refseq_name": "40S ribosomal protein eS19 RPS19A", "gene_name": "RPS19A", "gene_names_uniprotkb": "RPS19A; RP55A; RPS16AA", "gene_names_refseq": "RPS19A", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07280", "url": "https://www.uniprot.org/uniprotkb/P07280" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07280", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07280" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005481", "url": "https://www.yeastgenome.org/locus/S000005481", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07280", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07280", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MPGV", "down_seq": "VRDVAAQDFINAYASFLQRQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005481", "url": "https://www.yeastgenome.org/locus/S000005481" }, { "database": "iPTMnet", "id": "P07280", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07280" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser5" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "65", "end_pos": "65" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "upstream", "id": "P07280-1.15.15", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07280-1.18.18", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07281-1.117.117", "start_pos": 117, "end_pos": 117, "uniprot_canonical_ac": "P07281-1", "length": 144, "uniprot_id": "RS19B_YEAST", "protein_name": "Small ribosomal subunit protein eS19B", "refseq_ac": "NP_014097", "refseq_name": "40S ribosomal protein eS19 RPS19B", "gene_name": "RPS19B", "gene_names_uniprotkb": "RPS19B; N0422; RP55B; RPS16AB", "gene_names_refseq": "RP55B; RPS19B", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07281", "url": "https://www.uniprot.org/uniprotkb/P07281" } ], "common_name": "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": "P07281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07281" } ], "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": "iPTMnet", "id": "P07281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07281" } ], "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": "P07281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07281" } ], "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": "P07281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07281" } ], "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": "P07281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07281" } ], "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": "P07281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07281" } ], "reference": [ { "type": "PubMed", "id": "27821475", "url": "https://glygen.org/publication/PubMed/27821475" } ] } ], "crossref": [ { "id": "P07281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07281", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005246", "url": "https://www.yeastgenome.org/locus/S000005246", "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" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SGSINRKVLQALEKIGIVEI", "down_seq": "PKGGRRISENGQRDLDRIAA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07281" }, { "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": "S000005246", "url": "https://www.yeastgenome.org/locus/S000005246" }, { "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" } ], "site_lbl": "Ser117" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P07281-1.99.99", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07281-1.125.125", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07281-1.125.125", "start_pos": 125, "end_pos": 125, "uniprot_canonical_ac": "P07281-1", "length": 144, "uniprot_id": "RS19B_YEAST", "protein_name": "Small ribosomal subunit protein eS19B", "refseq_ac": "NP_014097", "refseq_name": "40S ribosomal protein eS19 RPS19B", "gene_name": "RPS19B", "gene_names_uniprotkb": "RPS19B; N0422; RP55B; RPS16AB", "gene_names_refseq": "RP55B; RPS19B", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07281", "url": "https://www.uniprot.org/uniprotkb/P07281" } ], "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": "P07281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07281" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000005246", "url": "https://www.yeastgenome.org/locus/S000005246", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07281", "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": "LQALEKIGIVEISPKGGRRI", "down_seq": "ENGQRDLDRIAAQTLEEDE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005246", "url": "https://www.yeastgenome.org/locus/S000005246" }, { "database": "iPTMnet", "id": "P07281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07281" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser125" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P07281-1.117.117", "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": "P07281-1.20.20", "start_pos": 20, "end_pos": 20, "uniprot_canonical_ac": "P07281-1", "length": 144, "uniprot_id": "RS19B_YEAST", "protein_name": "Small ribosomal subunit protein eS19B", "refseq_ac": "NP_014097", "refseq_name": "40S ribosomal protein eS19 RPS19B", "gene_name": "RPS19B", "gene_names_uniprotkb": "RPS19B; N0422; RP55B; RPS16AB", "gene_names_refseq": "RP55B; RPS19B", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07281", "url": "https://www.uniprot.org/uniprotkb/P07281" } ], "common_name": "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": "P07281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07281" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P07281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07281", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005246", "url": "https://www.yeastgenome.org/locus/S000005246", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "", "down_seq": "FLQRQGKLEVPGYVDIVKTS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07281" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000005246", "url": "https://www.yeastgenome.org/locus/S000005246" } ], "site_lbl": "Ser20" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P07281-1.5.5", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07281-1.41.41", "start_pos": 41, "end_pos": 41, "uniprot_canonical_ac": "P07281-1", "length": 144, "uniprot_id": "RS19B_YEAST", "protein_name": "Small ribosomal subunit protein eS19B", "refseq_ac": "NP_014097", "refseq_name": "40S ribosomal protein eS19 RPS19B", "gene_name": "RPS19B", "gene_names_uniprotkb": "RPS19B; N0422; RP55B; RPS16AB", "gene_names_refseq": "RP55B; RPS19B", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07281", "url": "https://www.uniprot.org/uniprotkb/P07281" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07281" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000005246", "url": "https://www.yeastgenome.org/locus/S000005246", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07281", "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": "FLQRQGKLEVPGYVDIVKTS", "down_seq": "GNEMPPQDAEGWFYKRAASV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005246", "url": "https://www.yeastgenome.org/locus/S000005246" }, { "database": "iPTMnet", "id": "P07281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07281" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser41" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "upstream", "id": "P07281-1.60.60", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07281-1.5.5", "start_pos": 5, "end_pos": 5, "uniprot_canonical_ac": "P07281-1", "length": 144, "uniprot_id": "RS19B_YEAST", "protein_name": "Small ribosomal subunit protein eS19B", "refseq_ac": "NP_014097", "refseq_name": "40S ribosomal protein eS19 RPS19B", "gene_name": "RPS19B", "gene_names_uniprotkb": "RPS19B; N0422; RP55B; RPS16AB", "gene_names_refseq": "RP55B; RPS19B", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07281", "url": "https://www.uniprot.org/uniprotkb/P07281" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07281" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005246", "url": "https://www.yeastgenome.org/locus/S000005246", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07281", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MAGV", "down_seq": "VRDVAAQDFINAYASFLQRQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005246", "url": "https://www.yeastgenome.org/locus/S000005246" }, { "database": "iPTMnet", "id": "P07281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07281" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser5" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "upstream", "id": "P07281-1.20.20", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07281-1.60.60", "start_pos": 60, "end_pos": 60, "uniprot_canonical_ac": "P07281-1", "length": 144, "uniprot_id": "RS19B_YEAST", "protein_name": "Small ribosomal subunit protein eS19B", "refseq_ac": "NP_014097", "refseq_name": "40S ribosomal protein eS19 RPS19B", "gene_name": "RPS19B", "gene_names_uniprotkb": "RPS19B; N0422; RP55B; RPS16AB", "gene_names_refseq": "RP55B; RPS19B", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07281", "url": "https://www.uniprot.org/uniprotkb/P07281" } ], "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": "P07281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07281" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] } ], "crossref": [ { "id": "P07281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07281", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SSGNEMPPQDAEGWFYKRAA", "down_seq": "VARHIYMRKQVGVGKLNKLY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07281" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ], "site_lbl": "Ser60" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P07281-1.41.41", "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": "P07281-1.99.99", "start_pos": 99, "end_pos": 99, "uniprot_canonical_ac": "P07281-1", "length": 144, "uniprot_id": "RS19B_YEAST", "protein_name": "Small ribosomal subunit protein eS19B", "refseq_ac": "NP_014097", "refseq_name": "40S ribosomal protein eS19 RPS19B", "gene_name": "RPS19B", "gene_names_uniprotkb": "RPS19B; N0422; RP55B; RPS16AB", "gene_names_refseq": "RP55B; RPS19B", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07281", "url": "https://www.uniprot.org/uniprotkb/P07281" } ], "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": "P07281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07281" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000005246", "url": "https://www.yeastgenome.org/locus/S000005246", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07281", "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": "LYGGAKSRGVRPYKHIDASG", "down_seq": "INRKVLQALEKIGIVEISPK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005246", "url": "https://www.yeastgenome.org/locus/S000005246" }, { "database": "iPTMnet", "id": "P07281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07281" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser99" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "upstream", "id": "P07281-1.117.117", "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": "P07283-1.115.115", "start_pos": 115, "end_pos": 115, "uniprot_canonical_ac": "P07283-1", "length": 254, "uniprot_id": "PMM_YEAST", "protein_name": "Phosphomannomutase", "refseq_ac": "NP_116609", "refseq_name": "phosphomannomutase SEC53", "gene_name": "SEC53", "gene_names_uniprotkb": "SEC53; ALG4", "gene_names_refseq": "ALG4; SEC53", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07283", "url": "https://www.uniprot.org/uniprotkb/P07283" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001849", "url": "https://www.yeastgenome.org/locus/S000001849", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283", "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": "INWLGEEKYNKLAVFILRYL", "down_seq": "EIDLPKRRGTFLEFRNGMIN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001849", "url": "https://www.yeastgenome.org/locus/S000001849" }, { "database": "iPTMnet", "id": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser115" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "upstream", "id": "P07283-1.125.125", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07283-1.125.125", "start_pos": 125, "end_pos": 125, "uniprot_canonical_ac": "P07283-1", "length": 254, "uniprot_id": "PMM_YEAST", "protein_name": "Phosphomannomutase", "refseq_ac": "NP_116609", "refseq_name": "phosphomannomutase SEC53", "gene_name": "SEC53", "gene_names_uniprotkb": "SEC53; ALG4", "gene_names_refseq": "ALG4; SEC53", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07283", "url": "https://www.uniprot.org/uniprotkb/P07283" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001849", "url": "https://www.yeastgenome.org/locus/S000001849", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283", "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": "KLAVFILRYLSEIDLPKRRG", "down_seq": "FLEFRNGMINVSPIGRNAST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001849", "url": "https://www.yeastgenome.org/locus/S000001849" }, { "database": "iPTMnet", "id": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr125" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P07283-1.115.115", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P07283-1.137.137", "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": "P07283-1.137.137", "start_pos": 137, "end_pos": 137, "uniprot_canonical_ac": "P07283-1", "length": 254, "uniprot_id": "PMM_YEAST", "protein_name": "Phosphomannomutase", "refseq_ac": "NP_116609", "refseq_name": "phosphomannomutase SEC53", "gene_name": "SEC53", "gene_names_uniprotkb": "SEC53; ALG4", "gene_names_refseq": "ALG4; SEC53", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07283", "url": "https://www.uniprot.org/uniprotkb/P07283" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001849", "url": "https://www.yeastgenome.org/locus/S000001849", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283", "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": "IDLPKRRGTFLEFRNGMINV", "down_seq": "PIGRNASTEERNEFERYDKE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001849", "url": "https://www.yeastgenome.org/locus/S000001849" }, { "database": "iPTMnet", "id": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser137" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P07283-1.125.125", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07283-1.197.197", "start_pos": 197, "end_pos": 197, "uniprot_canonical_ac": "P07283-1", "length": 254, "uniprot_id": "PMM_YEAST", "protein_name": "Phosphomannomutase", "refseq_ac": "NP_116609", "refseq_name": "phosphomannomutase SEC53", "gene_name": "SEC53", "gene_names_uniprotkb": "SEC53; ALG4", "gene_names_refseq": "ALG4; SEC53", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07283", "url": "https://www.uniprot.org/uniprotkb/P07283" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001849", "url": "https://www.yeastgenome.org/locus/S000001849", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283", "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": "LTFSIGGQISFDVFPAGWDK", "down_seq": "YCLQHVEKDGFKEIHFFGDK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001849", "url": "https://www.yeastgenome.org/locus/S000001849" }, { "database": "iPTMnet", "id": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr197" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07283-1.233.233", "start_pos": 233, "end_pos": 233, "uniprot_canonical_ac": "P07283-1", "length": 254, "uniprot_id": "PMM_YEAST", "protein_name": "Phosphomannomutase", "refseq_ac": "NP_116609", "refseq_name": "phosphomannomutase SEC53", "gene_name": "SEC53", "gene_names_uniprotkb": "SEC53; ALG4", "gene_names_refseq": "ALG4; SEC53", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07283", "url": "https://www.uniprot.org/uniprotkb/P07283" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001849", "url": "https://www.yeastgenome.org/locus/S000001849", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283", "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": "FFGDKTMVGGNDYEIFVDER", "down_seq": "IGHSVQSPDDTVKILTELFN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001849", "url": "https://www.yeastgenome.org/locus/S000001849" }, { "database": "iPTMnet", "id": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr233" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P07283-1.237.237", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07283-1.240.240", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07283-1.237.237", "start_pos": 237, "end_pos": 237, "uniprot_canonical_ac": "P07283-1", "length": 254, "uniprot_id": "PMM_YEAST", "protein_name": "Phosphomannomutase", "refseq_ac": "NP_116609", "refseq_name": "phosphomannomutase SEC53", "gene_name": "SEC53", "gene_names_uniprotkb": "SEC53; ALG4", "gene_names_refseq": "ALG4; SEC53", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07283", "url": "https://www.uniprot.org/uniprotkb/P07283" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283" } ], "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": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001849", "url": "https://www.yeastgenome.org/locus/S000001849", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283", "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": "KTMVGGNDYEIFVDERTIGH", "down_seq": "VQSPDDTVKILTELFNL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001849", "url": "https://www.yeastgenome.org/locus/S000001849" }, { "database": "iPTMnet", "id": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283" }, { "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": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P07283-1.233.233", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07283-1.240.240", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07283-1.240.240", "start_pos": 240, "end_pos": 240, "uniprot_canonical_ac": "P07283-1", "length": 254, "uniprot_id": "PMM_YEAST", "protein_name": "Phosphomannomutase", "refseq_ac": "NP_116609", "refseq_name": "phosphomannomutase SEC53", "gene_name": "SEC53", "gene_names_uniprotkb": "SEC53; ALG4", "gene_names_refseq": "ALG4; SEC53", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07283", "url": "https://www.uniprot.org/uniprotkb/P07283" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07283", "url": "https://www.uniprot.org/uniprotkb/P07283" }, { "database": "iPTMnet", "id": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283" } ], "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": "P07283", "url": "https://www.uniprot.org/uniprotkb/P07283" }, { "database": "iPTMnet", "id": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283" } ], "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": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283" } ], "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": "iPTMnet", "id": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283" } ], "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": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283" } ], "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": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283" } ], "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": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07283", "url": "https://www.uniprot.org/uniprotkb/P07283", "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": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283", "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": "S000001849", "url": "https://www.yeastgenome.org/locus/S000001849", "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": "VGGNDYEIFVDERTIGHSVQ", "down_seq": "PDDTVKILTELFNL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07283", "url": "https://www.uniprot.org/uniprotkb/P07283" }, { "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": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283" }, { "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": "S000001849", "url": "https://www.yeastgenome.org/locus/S000001849" }, { "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": "Ser240" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P07283-1.233.233", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07283-1.237.237", "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": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07283-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P07283-1", "length": 254, "uniprot_id": "PMM_YEAST", "protein_name": "Phosphomannomutase", "refseq_ac": "NP_116609", "refseq_name": "phosphomannomutase SEC53", "gene_name": "SEC53", "gene_names_uniprotkb": "SEC53; ALG4", "gene_names_refseq": "ALG4; SEC53", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07283", "url": "https://www.uniprot.org/uniprotkb/P07283" } ], "common_name": "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": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283" } ], "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": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001849", "url": "https://www.yeastgenome.org/locus/S000001849", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "M", "down_seq": "IAEFAYKEKPETLVLFDVDG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001849", "url": "https://www.yeastgenome.org/locus/S000001849" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07283-1.54.54", "start_pos": 54, "end_pos": 54, "uniprot_canonical_ac": "P07283-1", "length": 254, "uniprot_id": "PMM_YEAST", "protein_name": "Phosphomannomutase", "refseq_ac": "NP_116609", "refseq_name": "phosphomannomutase SEC53", "gene_name": "SEC53", "gene_names_uniprotkb": "SEC53; ALG4", "gene_names_refseq": "ALG4; SEC53", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07283", "url": "https://www.uniprot.org/uniprotkb/P07283" } ], "common_name": "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": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283" } ], "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": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001849", "url": "https://www.yeastgenome.org/locus/S000001849", "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": "EVRKTLAKLRNKCCIGFVGG", "down_seq": "DLSKQLEQLGPNVLDEFDYS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001849", "url": "https://www.yeastgenome.org/locus/S000001849" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser54" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07283-1.91.91", "start_pos": 91, "end_pos": 91, "uniprot_canonical_ac": "P07283-1", "length": 254, "uniprot_id": "PMM_YEAST", "protein_name": "Phosphomannomutase", "refseq_ac": "NP_116609", "refseq_name": "phosphomannomutase SEC53", "gene_name": "SEC53", "gene_names_uniprotkb": "SEC53; ALG4", "gene_names_refseq": "ALG4; SEC53", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07283", "url": "https://www.uniprot.org/uniprotkb/P07283" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001849", "url": "https://www.yeastgenome.org/locus/S000001849", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283", "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": "FDYSFSENGLTAYRLGKELA", "down_seq": "QSFINWLGEEKYNKLAVFIL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001849", "url": "https://www.yeastgenome.org/locus/S000001849" }, { "database": "iPTMnet", "id": "P07283", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07283" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser91" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07342-1.222.222", "start_pos": 222, "end_pos": 222, "uniprot_canonical_ac": "P07342-1", "length": 687, "uniprot_id": "ILVB_YEAST", "protein_name": "Acetolactate synthase catalytic subunit, mitochondrial", "refseq_ac": "NP_013826", "refseq_name": "acetolactate synthase catalytic subunit", "gene_name": "ILV2", "gene_names_uniprotkb": "ILV2; SMR1; YM9718.07", "gene_names_refseq": "ILV2; SMR1; THI1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07342", "url": "https://www.uniprot.org/uniprotkb/P07342" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004714", "url": "https://www.yeastgenome.org/locus/S000004714", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342", "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": "QEADVVGISRSCTKWNVMVK", "down_seq": "VEELPLRINEAFEIATSGRP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004714", "url": "https://www.yeastgenome.org/locus/S000004714" }, { "database": "iPTMnet", "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser222" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "222", "end_pos": "222" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "469", "end_pos": "469" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "73", "end_pos": "73" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07342-1.270.270", "start_pos": 270, "end_pos": 270, "uniprot_canonical_ac": "P07342-1", "length": 687, "uniprot_id": "ILVB_YEAST", "protein_name": "Acetolactate synthase catalytic subunit, mitochondrial", "refseq_ac": "NP_013826", "refseq_name": "acetolactate synthase catalytic subunit", "gene_name": "ILV2", "gene_names_uniprotkb": "ILV2; SMR1; YM9718.07", "gene_names_refseq": "ILV2; SMR1; THI1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07342", "url": "https://www.uniprot.org/uniprotkb/P07342" } ], "common_name": "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": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004714", "url": "https://www.yeastgenome.org/locus/S000004714", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PKDVTAAILRNPIPTKTTLP", "down_seq": "NALNQLTSRAQDEFVMQSIN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000004714", "url": "https://www.yeastgenome.org/locus/S000004714" } ], "site_lbl": "Ser270" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "222", "end_pos": "222" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "469", "end_pos": "469" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "73", "end_pos": "73" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "upstream", "id": "P07342-1.278.278", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P07342-1.288.288", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07342-1.278.278", "start_pos": 278, "end_pos": 278, "uniprot_canonical_ac": "P07342-1", "length": 687, "uniprot_id": "ILVB_YEAST", "protein_name": "Acetolactate synthase catalytic subunit, mitochondrial", "refseq_ac": "NP_013826", "refseq_name": "acetolactate synthase catalytic subunit", "gene_name": "ILV2", "gene_names_uniprotkb": "ILV2; SMR1; YM9718.07", "gene_names_refseq": "ILV2; SMR1; THI1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07342", "url": "https://www.uniprot.org/uniprotkb/P07342" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004714", "url": "https://www.yeastgenome.org/locus/S000004714", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LRNPIPTKTTLPSNALNQLT", "down_seq": "RAQDEFVMQSINKAADLINL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004714", "url": "https://www.yeastgenome.org/locus/S000004714" }, { "database": "iPTMnet", "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser278" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "222", "end_pos": "222" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "469", "end_pos": "469" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "73", "end_pos": "73" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P07342-1.270.270", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07342-1.288.288", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07342-1.288.288", "start_pos": 288, "end_pos": 288, "uniprot_canonical_ac": "P07342-1", "length": 687, "uniprot_id": "ILVB_YEAST", "protein_name": "Acetolactate synthase catalytic subunit, mitochondrial", "refseq_ac": "NP_013826", "refseq_name": "acetolactate synthase catalytic subunit", "gene_name": "ILV2", "gene_names_uniprotkb": "ILV2; SMR1; YM9718.07", "gene_names_refseq": "ILV2; SMR1; THI1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07342", "url": "https://www.uniprot.org/uniprotkb/P07342" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004714", "url": "https://www.yeastgenome.org/locus/S000004714", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342", "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": "LPSNALNQLTSRAQDEFVMQ", "down_seq": "INKAADLINLAKKPVLYVGA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004714", "url": "https://www.yeastgenome.org/locus/S000004714" }, { "database": "iPTMnet", "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser288" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "222", "end_pos": "222" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "469", "end_pos": "469" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "73", "end_pos": "73" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P07342-1.270.270", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P07342-1.278.278", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07342-1.386.386", "start_pos": 386, "end_pos": 386, "uniprot_canonical_ac": "P07342-1", "length": 687, "uniprot_id": "ILVB_YEAST", "protein_name": "Acetolactate synthase catalytic subunit, mitochondrial", "refseq_ac": "NP_013826", "refseq_name": "acetolactate synthase catalytic subunit", "gene_name": "ILV2", "gene_names_uniprotkb": "ILV2; SMR1; YM9718.07", "gene_names_refseq": "ILV2; SMR1; THI1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07342", "url": "https://www.uniprot.org/uniprotkb/P07342" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004714", "url": "https://www.yeastgenome.org/locus/S000004714", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NADLIIAVGARFDDRVTGNI", "down_seq": "KFAPEARRAAAEGRGGIIHF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004714", "url": "https://www.yeastgenome.org/locus/S000004714" }, { "database": "iPTMnet", "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser386" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "222", "end_pos": "222" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "469", "end_pos": "469" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "73", "end_pos": "73" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07342-1.436.436", "start_pos": 436, "end_pos": 436, "uniprot_canonical_ac": "P07342-1", "length": 687, "uniprot_id": "ILVB_YEAST", "protein_name": "Acetolactate synthase catalytic subunit, mitochondrial", "refseq_ac": "NP_013826", "refseq_name": "acetolactate synthase catalytic subunit", "gene_name": "ILV2", "gene_names_uniprotkb": "ILV2; SMR1; YM9718.07", "gene_names_refseq": "ILV2; SMR1; THI1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07342", "url": "https://www.uniprot.org/uniprotkb/P07342" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004714", "url": "https://www.yeastgenome.org/locus/S000004714", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VVQTQIAVEGDATTNLGKMM", "down_seq": "KIFPVKERSEWFAQINKWKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004714", "url": "https://www.yeastgenome.org/locus/S000004714" }, { "database": "iPTMnet", "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser436" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "222", "end_pos": "222" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "469", "end_pos": "469" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "73", "end_pos": "73" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "upstream", "id": "P07342-1.445.445", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07342-1.445.445", "start_pos": 445, "end_pos": 445, "uniprot_canonical_ac": "P07342-1", "length": 687, "uniprot_id": "ILVB_YEAST", "protein_name": "Acetolactate synthase catalytic subunit, mitochondrial", "refseq_ac": "NP_013826", "refseq_name": "acetolactate synthase catalytic subunit", "gene_name": "ILV2", "gene_names_uniprotkb": "ILV2; SMR1; YM9718.07", "gene_names_refseq": "ILV2; SMR1; THI1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07342", "url": "https://www.uniprot.org/uniprotkb/P07342" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004714", "url": "https://www.yeastgenome.org/locus/S000004714", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342", "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": "GDATTNLGKMMSKIFPVKER", "down_seq": "EWFAQINKWKKEYPYAYMEE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004714", "url": "https://www.yeastgenome.org/locus/S000004714" }, { "database": "iPTMnet", "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser445" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "222", "end_pos": "222" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "469", "end_pos": "469" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "73", "end_pos": "73" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P07342-1.436.436", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07342-1.45.45", "start_pos": 45, "end_pos": 45, "uniprot_canonical_ac": "P07342-1", "length": 687, "uniprot_id": "ILVB_YEAST", "protein_name": "Acetolactate synthase catalytic subunit, mitochondrial", "refseq_ac": "NP_013826", "refseq_name": "acetolactate synthase catalytic subunit", "gene_name": "ILV2", "gene_names_uniprotkb": "ILV2; SMR1; YM9718.07", "gene_names_refseq": "ILV2; SMR1; THI1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07342", "url": "https://www.uniprot.org/uniprotkb/P07342" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004714", "url": "https://www.yeastgenome.org/locus/S000004714", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342", "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": "PAMRSVALAQRFYSSSSRYY", "down_seq": "ASPLPASKRPEPAPSFNVDP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004714", "url": "https://www.yeastgenome.org/locus/S000004714" }, { "database": "iPTMnet", "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser45" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "222", "end_pos": "222" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "469", "end_pos": "469" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "73", "end_pos": "73" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "upstream", "id": "P07342-1.60.60", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07342-1.466.466", "start_pos": 466, "end_pos": 466, "uniprot_canonical_ac": "P07342-1", "length": 687, "uniprot_id": "ILVB_YEAST", "protein_name": "Acetolactate synthase catalytic subunit, mitochondrial", "refseq_ac": "NP_013826", "refseq_name": "acetolactate synthase catalytic subunit", "gene_name": "ILV2", "gene_names_uniprotkb": "ILV2; SMR1; YM9718.07", "gene_names_refseq": "ILV2; SMR1; THI1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07342", "url": "https://www.uniprot.org/uniprotkb/P07342" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004714", "url": "https://www.yeastgenome.org/locus/S000004714", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342", "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": "EWFAQINKWKKEYPYAYMEE", "down_seq": "PGSKIKPQTVIKKLSKVAND", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004714", "url": "https://www.yeastgenome.org/locus/S000004714" }, { "database": "iPTMnet", "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr466" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "222", "end_pos": "222" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "469", "end_pos": "469" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "73", "end_pos": "73" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P07342-1.469.469", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07342-1.469.469", "start_pos": 469, "end_pos": 469, "uniprot_canonical_ac": "P07342-1", "length": 687, "uniprot_id": "ILVB_YEAST", "protein_name": "Acetolactate synthase catalytic subunit, mitochondrial", "refseq_ac": "NP_013826", "refseq_name": "acetolactate synthase catalytic subunit", "gene_name": "ILV2", "gene_names_uniprotkb": "ILV2; SMR1; YM9718.07", "gene_names_refseq": "ILV2; SMR1; THI1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07342", "url": "https://www.uniprot.org/uniprotkb/P07342" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004714", "url": "https://www.yeastgenome.org/locus/S000004714", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342", "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": "AQINKWKKEYPYAYMEETPG", "down_seq": "KIKPQTVIKKLSKVANDTGR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004714", "url": "https://www.yeastgenome.org/locus/S000004714" }, { "database": "iPTMnet", "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser469" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "222", "end_pos": "222" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "469", "end_pos": "469" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "73", "end_pos": "73" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P07342-1.466.466", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07342-1.60.60", "start_pos": 60, "end_pos": 60, "uniprot_canonical_ac": "P07342-1", "length": 687, "uniprot_id": "ILVB_YEAST", "protein_name": "Acetolactate synthase catalytic subunit, mitochondrial", "refseq_ac": "NP_013826", "refseq_name": "acetolactate synthase catalytic subunit", "gene_name": "ILV2", "gene_names_uniprotkb": "ILV2; SMR1; YM9718.07", "gene_names_refseq": "ILV2; SMR1; THI1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07342", "url": "https://www.uniprot.org/uniprotkb/P07342" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000004714", "url": "https://www.yeastgenome.org/locus/S000004714", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342", "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": "SSRYYSASPLPASKRPEPAP", "down_seq": "FNVDPLEQPAEPSKLAKKLR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004714", "url": "https://www.yeastgenome.org/locus/S000004714" }, { "database": "iPTMnet", "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser60" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "222", "end_pos": "222" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "469", "end_pos": "469" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "73", "end_pos": "73" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P07342-1.45.45", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07342-1.73.73", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07342-1.73.73", "start_pos": 73, "end_pos": 73, "uniprot_canonical_ac": "P07342-1", "length": 687, "uniprot_id": "ILVB_YEAST", "protein_name": "Acetolactate synthase catalytic subunit, mitochondrial", "refseq_ac": "NP_013826", "refseq_name": "acetolactate synthase catalytic subunit", "gene_name": "ILV2", "gene_names_uniprotkb": "ILV2; SMR1; YM9718.07", "gene_names_refseq": "ILV2; SMR1; THI1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07342", "url": "https://www.uniprot.org/uniprotkb/P07342" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004714", "url": "https://www.yeastgenome.org/locus/S000004714", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KRPEPAPSFNVDPLEQPAEP", "down_seq": "KLAKKLRAEPDMDTSFVGLT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004714", "url": "https://www.yeastgenome.org/locus/S000004714" }, { "database": "iPTMnet", "id": "P07342", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07342" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser73" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "222", "end_pos": "222" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "469", "end_pos": "469" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "73", "end_pos": "73" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P07342-1.60.60", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07347-1.57.57", "start_pos": 57, "end_pos": 57, "uniprot_canonical_ac": "P07347-1", "length": 238, "uniprot_id": "ARD1_YEAST", "protein_name": "N-terminal acetyltransferase A complex catalytic subunit ARD1", "refseq_ac": "NP_011877", "refseq_name": "peptide alpha-N-acetyltransferase complex A subunit ARD1", "gene_name": "ARD1", "gene_names_uniprotkb": "ARD1", "gene_names_refseq": "ARD1; NAA10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07347", "url": "https://www.uniprot.org/uniprotkb/P07347" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07347", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07347" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001055", "url": "https://www.yeastgenome.org/locus/S000001055", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07347", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07347", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ILSWPEASFVATTTTLDCED", "down_seq": "DEQDENDKLELTLDGTNDGR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001055", "url": "https://www.yeastgenome.org/locus/S000001055" }, { "database": "iPTMnet", "id": "P07347", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07347" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser57" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "57", "end_pos": "57" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07560-1.10.10", "start_pos": 10, "end_pos": 10, "uniprot_canonical_ac": "P07560-1", "length": 215, "uniprot_id": "SEC4_YEAST", "protein_name": "Ras-related protein SEC4", "refseq_ac": "NP_116650", "refseq_name": "Rab family GTPase SEC4", "gene_name": "SEC4", "gene_names_uniprotkb": "SEC4; SRO6", "gene_names_refseq": "SEC4; SRO6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07560", "url": "https://www.uniprot.org/uniprotkb/P07560" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cell cycle-dependent phosphorylation of Sec4p controls membrane deposition during cytokinesis.", "journal": "The Journal of cell biology", "date": "2016-09-12", "authors": "Lepore Dante, Spassibojko Olya, Pinto Gabrielle, Collins Ruth N", "evidence": [ { "database": "iPTMnet", "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "reference": [ { "type": "PubMed", "id": "27621363", "url": "https://glygen.org/publication/PubMed/27621363" } ] } ], "crossref": [ { "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "27621363", "url": "https://glygen.org/publication/PubMed/27621363", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MSGLRTVSA", "down_seq": "SGNGKSYDSIMKILLIGDSG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" }, { "database": "PubMed", "id": "27621363", "url": "https://glygen.org/publication/PubMed/27621363" } ], "site_lbl": "Ser10" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P07560-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07560-1.6.6", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07560-1.8.8", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07560-1.11.11", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07560-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P07560-1.29.29", "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": "P07560-1.11.11", "start_pos": 11, "end_pos": 11, "uniprot_canonical_ac": "P07560-1", "length": 215, "uniprot_id": "SEC4_YEAST", "protein_name": "Ras-related protein SEC4", "refseq_ac": "NP_116650", "refseq_name": "Rab family GTPase SEC4", "gene_name": "SEC4", "gene_names_uniprotkb": "SEC4; SRO6", "gene_names_refseq": "SEC4; SRO6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07560", "url": "https://www.uniprot.org/uniprotkb/P07560" } ], "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": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "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": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "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": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "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": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Phosphorylation provides a negative mode of regulation for the yeast Rab GTPase Sec4p.", "journal": "PloS one", "date": "2011", "authors": "Heger Christopher D, Wrann Christiane D, Collins Ruth N", "evidence": [ { "database": "iPTMnet", "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "reference": [ { "type": "PubMed", "id": "21931684", "url": "https://glygen.org/publication/PubMed/21931684" } ] }, { "title": "Cell cycle-dependent phosphorylation of Sec4p controls membrane deposition during cytokinesis.", "journal": "The Journal of cell biology", "date": "2016-09-12", "authors": "Lepore Dante, Spassibojko Olya, Pinto Gabrielle, Collins Ruth N", "evidence": [ { "database": "iPTMnet", "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "reference": [ { "type": "PubMed", "id": "27621363", "url": "https://glygen.org/publication/PubMed/27621363" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "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": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21931684", "url": "https://glygen.org/publication/PubMed/21931684", "database": "PubMed", "categories": [ "Other" ] }, { "id": "27621363", "url": "https://glygen.org/publication/PubMed/27621363", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001889", "url": "https://www.yeastgenome.org/locus/S000001889", "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": "MSGLRTVSAS", "down_seq": "GNGKSYDSIMKILLIGDSGV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" }, { "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "PubMed", "id": "21931684", "url": "https://glygen.org/publication/PubMed/21931684" }, { "database": "PubMed", "id": "27621363", "url": "https://glygen.org/publication/PubMed/27621363" }, { "database": "SGD", "id": "S000001889", "url": "https://www.yeastgenome.org/locus/S000001889" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser11" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P07560-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07560-1.6.6", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07560-1.8.8", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07560-1.10.10", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07560-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P07560-1.29.29", "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": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07560-1.16.16", "start_pos": 16, "end_pos": 16, "uniprot_canonical_ac": "P07560-1", "length": 215, "uniprot_id": "SEC4_YEAST", "protein_name": "Ras-related protein SEC4", "refseq_ac": "NP_116650", "refseq_name": "Rab family GTPase SEC4", "gene_name": "SEC4", "gene_names_uniprotkb": "SEC4; SRO6", "gene_names_refseq": "SEC4; SRO6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07560", "url": "https://www.uniprot.org/uniprotkb/P07560" } ], "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": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560", "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": "MSGLRTVSASSGNGK", "down_seq": "YDSIMKILLIGDSGVGKSCL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Ser16" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P07560-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P07560-1.6.6", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07560-1.8.8", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07560-1.10.10", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07560-1.11.11", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07560-1.29.29", "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": "P07560-1.201.201", "start_pos": 201, "end_pos": 201, "uniprot_canonical_ac": "P07560-1", "length": 215, "uniprot_id": "SEC4_YEAST", "protein_name": "Ras-related protein SEC4", "refseq_ac": "NP_116650", "refseq_name": "Rab family GTPase SEC4", "gene_name": "SEC4", "gene_names_uniprotkb": "SEC4; SRO6", "gene_names_refseq": "SEC4; SRO6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07560", "url": "https://www.uniprot.org/uniprotkb/P07560" } ], "common_name": "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": "P07560", "url": "https://www.uniprot.org/uniprotkb/P07560" }, { "database": "iPTMnet", "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "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": "P07560", "url": "https://www.uniprot.org/uniprotkb/P07560" }, { "database": "iPTMnet", "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "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": "P07560", "url": "https://www.uniprot.org/uniprotkb/P07560" }, { "database": "iPTMnet", "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "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": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "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": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "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": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "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": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] }, { "title": "Phosphorylation provides a negative mode of regulation for the yeast Rab GTPase Sec4p.", "journal": "PloS one", "date": "2011", "authors": "Heger Christopher D, Wrann Christiane D, Collins Ruth N", "evidence": [ { "database": "iPTMnet", "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "reference": [ { "type": "PubMed", "id": "21931684", "url": "https://glygen.org/publication/PubMed/21931684" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "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": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07560", "url": "https://www.uniprot.org/uniprotkb/P07560", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560", "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": "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": "21931684", "url": "https://glygen.org/publication/PubMed/21931684", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001889", "url": "https://www.yeastgenome.org/locus/S000001889", "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": "QEKIDSNKLVGVGNGKEGNI", "down_seq": "INSGSGNSSKSNCC", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07560", "url": "https://www.uniprot.org/uniprotkb/P07560" }, { "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": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" }, { "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": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "PubMed", "id": "21931684", "url": "https://glygen.org/publication/PubMed/21931684" }, { "database": "SGD", "id": "S000001889", "url": "https://www.yeastgenome.org/locus/S000001889" }, { "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": "Ser201" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P07560-1.204.204", "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": 11 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07560-1.204.204", "start_pos": 204, "end_pos": 204, "uniprot_canonical_ac": "P07560-1", "length": 215, "uniprot_id": "SEC4_YEAST", "protein_name": "Ras-related protein SEC4", "refseq_ac": "NP_116650", "refseq_name": "Rab family GTPase SEC4", "gene_name": "SEC4", "gene_names_uniprotkb": "SEC4; SRO6", "gene_names_refseq": "SEC4; SRO6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07560", "url": "https://www.uniprot.org/uniprotkb/P07560" } ], "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": "P07560", "url": "https://www.uniprot.org/uniprotkb/P07560" }, { "database": "iPTMnet", "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "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": "P07560", "url": "https://www.uniprot.org/uniprotkb/P07560" }, { "database": "iPTMnet", "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "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": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "reference": [ { "type": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P07560", "url": "https://www.uniprot.org/uniprotkb/P07560" }, { "database": "iPTMnet", "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "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": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "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": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "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": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "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": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Phosphorylation provides a negative mode of regulation for the yeast Rab GTPase Sec4p.", "journal": "PloS one", "date": "2011", "authors": "Heger Christopher D, Wrann Christiane D, Collins Ruth N", "evidence": [ { "database": "iPTMnet", "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "reference": [ { "type": "PubMed", "id": "21931684", "url": "https://glygen.org/publication/PubMed/21931684" } ] }, { "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": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "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": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "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": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "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": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07560", "url": "https://www.uniprot.org/uniprotkb/P07560", "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": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433", "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": "21931684", "url": "https://glygen.org/publication/PubMed/21931684", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001889", "url": "https://www.yeastgenome.org/locus/S000001889", "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": "IDSNKLVGVGNGKEGNISIN", "down_seq": "GSGNSSKSNCC", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07560", "url": "https://www.uniprot.org/uniprotkb/P07560" }, { "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": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "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": "21931684", "url": "https://glygen.org/publication/PubMed/21931684" }, { "database": "SGD", "id": "S000001889", "url": "https://www.yeastgenome.org/locus/S000001889" }, { "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": "Ser204" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P07560-1.201.201", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 14 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07560-1.29.29", "start_pos": 29, "end_pos": 29, "uniprot_canonical_ac": "P07560-1", "length": 215, "uniprot_id": "SEC4_YEAST", "protein_name": "Ras-related protein SEC4", "refseq_ac": "NP_116650", "refseq_name": "Rab family GTPase SEC4", "gene_name": "SEC4", "gene_names_uniprotkb": "SEC4; SRO6", "gene_names_refseq": "SEC4; SRO6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07560", "url": "https://www.uniprot.org/uniprotkb/P07560" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cell cycle-dependent phosphorylation of Sec4p controls membrane deposition during cytokinesis.", "journal": "The Journal of cell biology", "date": "2016-09-12", "authors": "Lepore Dante, Spassibojko Olya, Pinto Gabrielle, Collins Ruth N", "evidence": [ { "database": "iPTMnet", "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "reference": [ { "type": "PubMed", "id": "27621363", "url": "https://glygen.org/publication/PubMed/27621363" } ] } ], "crossref": [ { "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "27621363", "url": "https://glygen.org/publication/PubMed/27621363", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ASSGNGKSYDSIMKILLIGD", "down_seq": "GVGKSCLLVRFVEDKFNPSF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" }, { "database": "PubMed", "id": "27621363", "url": "https://glygen.org/publication/PubMed/27621363" } ], "site_lbl": "Ser29" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P07560-1.10.10", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P07560-1.11.11", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P07560-1.16.16", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07560-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P07560-1", "length": 215, "uniprot_id": "SEC4_YEAST", "protein_name": "Ras-related protein SEC4", "refseq_ac": "NP_116650", "refseq_name": "Rab family GTPase SEC4", "gene_name": "SEC4", "gene_names_uniprotkb": "SEC4; SRO6", "gene_names_refseq": "SEC4; SRO6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07560", "url": "https://www.uniprot.org/uniprotkb/P07560" } ], "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": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "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": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] } ], "crossref": [ { "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560", "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": "M", "down_seq": "GLRTVSASSGNGKSYDSIMK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P07560-1.6.6", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07560-1.8.8", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07560-1.10.10", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07560-1.11.11", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07560-1.16.16", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07560-1.6.6", "start_pos": 6, "end_pos": 6, "uniprot_canonical_ac": "P07560-1", "length": 215, "uniprot_id": "SEC4_YEAST", "protein_name": "Ras-related protein SEC4", "refseq_ac": "NP_116650", "refseq_name": "Rab family GTPase SEC4", "gene_name": "SEC4", "gene_names_uniprotkb": "SEC4; SRO6", "gene_names_refseq": "SEC4; SRO6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07560", "url": "https://www.uniprot.org/uniprotkb/P07560" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07560", "url": "https://www.uniprot.org/uniprotkb/P07560" }, { "database": "iPTMnet", "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001889", "url": "https://www.yeastgenome.org/locus/S000001889", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "MSGLR", "down_seq": "VSASSGNGKSYDSIMKILLI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001889", "url": "https://www.yeastgenome.org/locus/S000001889" } ], "site_lbl": "Thr6" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P07560-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07560-1.8.8", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07560-1.10.10", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07560-1.11.11", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07560-1.16.16", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07560-1.87.87", "start_pos": 87, "end_pos": 87, "uniprot_canonical_ac": "P07560-1", "length": 215, "uniprot_id": "SEC4_YEAST", "protein_name": "Ras-related protein SEC4", "refseq_ac": "NP_116650", "refseq_name": "Rab family GTPase SEC4", "gene_name": "SEC4", "gene_names_uniprotkb": "SEC4; SRO6", "gene_names_refseq": "SEC4; SRO6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07560", "url": "https://www.uniprot.org/uniprotkb/P07560" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001889", "url": "https://www.yeastgenome.org/locus/S000001889", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560", "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": "KKVKLQLWDTAGQERFRTIT", "down_seq": "AYYRGAMGIILVYDVTDERT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001889", "url": "https://www.yeastgenome.org/locus/S000001889" }, { "database": "iPTMnet", "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr87" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07560-1.8.8", "start_pos": 8, "end_pos": 8, "uniprot_canonical_ac": "P07560-1", "length": 215, "uniprot_id": "SEC4_YEAST", "protein_name": "Ras-related protein SEC4", "refseq_ac": "NP_116650", "refseq_name": "Rab family GTPase SEC4", "gene_name": "SEC4", "gene_names_uniprotkb": "SEC4; SRO6", "gene_names_refseq": "SEC4; SRO6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07560", "url": "https://www.uniprot.org/uniprotkb/P07560" } ], "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": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "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": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "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": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "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": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Phosphorylation provides a negative mode of regulation for the yeast Rab GTPase Sec4p.", "journal": "PloS one", "date": "2011", "authors": "Heger Christopher D, Wrann Christiane D, Collins Ruth N", "evidence": [ { "database": "iPTMnet", "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "reference": [ { "type": "PubMed", "id": "21931684", "url": "https://glygen.org/publication/PubMed/21931684" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "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": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "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": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21931684", "url": "https://glygen.org/publication/PubMed/21931684", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001889", "url": "https://www.yeastgenome.org/locus/S000001889", "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": "MSGLRTV", "down_seq": "ASSGNGKSYDSIMKILLIGD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07560" }, { "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "PubMed", "id": "21931684", "url": "https://glygen.org/publication/PubMed/21931684" }, { "database": "SGD", "id": "S000001889", "url": "https://www.yeastgenome.org/locus/S000001889" }, { "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": "Ser8" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P07560-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07560-1.6.6", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07560-1.10.10", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07560-1.11.11", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07560-1.16.16", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07702-1.92.92", "start_pos": 92, "end_pos": 92, "uniprot_canonical_ac": "P07702-1", "length": 1392, "uniprot_id": "LYS2_YEAST", "protein_name": "L-2-aminoadipate reductase", "refseq_ac": "NP_009673", "refseq_name": "L-aminoadipate-semialdehyde dehydrogenase", "gene_name": "LYS2", "gene_names_uniprotkb": "LYS2; YBR0910", "gene_names_refseq": "LYS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07702", "url": "https://www.uniprot.org/uniprotkb/P07702" } ], "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": "DDDIVLYIANNKILRFNIQP", "down_seq": "WSFNELYSTINNELNKLNSI", "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": "Thr92", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "92", "end_pos": "92" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1277", "end_pos": "1277" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "926", "end_pos": "926" } ] } ], "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": "P07702-1.1277.1277", "start_pos": 1277, "end_pos": 1277, "uniprot_canonical_ac": "P07702-1", "length": 1392, "uniprot_id": "LYS2_YEAST", "protein_name": "L-2-aminoadipate reductase", "refseq_ac": "NP_009673", "refseq_name": "L-aminoadipate-semialdehyde dehydrogenase", "gene_name": "LYS2", "gene_names_uniprotkb": "LYS2; YBR0910", "gene_names_refseq": "LYS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07702", "url": "https://www.uniprot.org/uniprotkb/P07702" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07702", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07702" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000319", "url": "https://www.yeastgenome.org/locus/S000000319", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07702", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07702", "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": "YTLHDYGYDVEIESYSKWKK", "down_seq": "LEASVIDRNEENALYPLLHM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000319", "url": "https://www.yeastgenome.org/locus/S000000319" }, { "database": "iPTMnet", "id": "P07702", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07702" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser1277" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "92", "end_pos": "92" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1277", "end_pos": "1277" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "926", "end_pos": "926" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07702-1.213.213", "start_pos": 213, "end_pos": 213, "uniprot_canonical_ac": "P07702-1", "length": 1392, "uniprot_id": "LYS2_YEAST", "protein_name": "L-2-aminoadipate reductase", "refseq_ac": "NP_009673", "refseq_name": "L-aminoadipate-semialdehyde dehydrogenase", "gene_name": "LYS2", "gene_names_uniprotkb": "LYS2; YBR0910", "gene_names_refseq": "LYS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07702", "url": "https://www.uniprot.org/uniprotkb/P07702" } ], "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": "P07702", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07702" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P07702", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07702", "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": "QFTQYLTAALSDPSNCITKI", "down_seq": "LITASSKDSLPDPTKNLGWC", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07702", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07702" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser213" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "92", "end_pos": "92" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1277", "end_pos": "1277" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "926", "end_pos": "926" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P07702-1.216.216", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07702-1.216.216", "start_pos": 216, "end_pos": 216, "uniprot_canonical_ac": "P07702-1", "length": 1392, "uniprot_id": "LYS2_YEAST", "protein_name": "L-2-aminoadipate reductase", "refseq_ac": "NP_009673", "refseq_name": "L-aminoadipate-semialdehyde dehydrogenase", "gene_name": "LYS2", "gene_names_uniprotkb": "LYS2; YBR0910", "gene_names_refseq": "LYS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07702", "url": "https://www.uniprot.org/uniprotkb/P07702" } ], "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": "P07702", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07702" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P07702", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07702", "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": "QYLTAALSDPSNCITKISLI", "down_seq": "ASSKDSLPDPTKNLGWCDFV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07702", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07702" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Thr216" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "92", "end_pos": "92" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1277", "end_pos": "1277" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "926", "end_pos": "926" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P07702-1.213.213", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07702-1.259.259", "start_pos": 259, "end_pos": 259, "uniprot_canonical_ac": "P07702-1", "length": 1392, "uniprot_id": "LYS2_YEAST", "protein_name": "L-2-aminoadipate reductase", "refseq_ac": "NP_009673", "refseq_name": "L-aminoadipate-semialdehyde dehydrogenase", "gene_name": "LYS2", "gene_names_uniprotkb": "LYS2; YBR0910", "gene_names_refseq": "LYS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07702", "url": "https://www.uniprot.org/uniprotkb/P07702" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07702", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07702" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000319", "url": "https://www.yeastgenome.org/locus/S000000319", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07702", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07702", "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": "IHDIFQDNAEAFPERTCVVE", "down_seq": "PTLNSDKSRSFTYRDINRTS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000319", "url": "https://www.yeastgenome.org/locus/S000000319" }, { "database": "iPTMnet", "id": "P07702", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07702" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr259" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "92", "end_pos": "92" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1277", "end_pos": "1277" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "926", "end_pos": "926" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07702-1.880.880", "start_pos": 880, "end_pos": 880, "uniprot_canonical_ac": "P07702-1", "length": 1392, "uniprot_id": "LYS2_YEAST", "protein_name": "L-2-aminoadipate reductase", "refseq_ac": "NP_009673", "refseq_name": "L-aminoadipate-semialdehyde dehydrogenase", "gene_name": "LYS2", "gene_names_uniprotkb": "LYS2; YBR0910", "gene_names_refseq": "LYS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07702", "url": "https://www.uniprot.org/uniprotkb/P07702" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Lysine biosynthesis in Saccharomyces cerevisiae: mechanism of alpha-aminoadipate reductase (Lys2) involves posttranslational phosphopantetheinylation by Lys5.", "journal": "Biochemistry", "date": "1999-05-11", "authors": "Ehmann D E, Gehring A M, Walsh C T", "evidence": [ { "database": "UniProtKB", "id": "P07702", "url": "https://www.uniprot.org/uniprotkb/P07702" }, { "database": "iPTMnet", "id": "P07702", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07702" } ], "reference": [ { "type": "PubMed", "id": "10320345", "url": "https://glygen.org/publication/PubMed/10320345" } ] } ], "crossref": [ { "id": "P07702", "url": "https://proconsortium.org/cgi-bin/entry_pro?id=P07702", "database": "PRO", "categories": [ "Other" ] }, { "id": "P07702", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07702", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "10320345", "url": "https://glygen.org/publication/PubMed/10320345", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LPTKPASVSPDDSFFDLGGH", "down_seq": "ILATKMIFTLKKKLQVDLPL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "PRO", "id": "P07702", "url": "https://proconsortium.org/cgi-bin/entry_pro?id=P07702" }, { "database": "iPTMnet", "id": "P07702", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07702" }, { "database": "PubMed", "id": "10320345", "url": "https://glygen.org/publication/PubMed/10320345" } ], "site_lbl": "Ser880" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "92", "end_pos": "92" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1277", "end_pos": "1277" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "926", "end_pos": "926" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07702-1.926.926", "start_pos": 926, "end_pos": 926, "uniprot_canonical_ac": "P07702-1", "length": 1392, "uniprot_id": "LYS2_YEAST", "protein_name": "L-2-aminoadipate reductase", "refseq_ac": "NP_009673", "refseq_name": "L-aminoadipate-semialdehyde dehydrogenase", "gene_name": "LYS2", "gene_names_uniprotkb": "LYS2; YBR0910", "gene_names_refseq": "LYS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07702", "url": "https://www.uniprot.org/uniprotkb/P07702" } ], "common_name": "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": "P07702", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07702" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P07702", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07702", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000319", "url": "https://www.yeastgenome.org/locus/S000000319", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YPTIKAFAAEIDRIKSSGGS", "down_seq": "QGEVVENVTANYAEDAKKLV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07702", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07702" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000319", "url": "https://www.yeastgenome.org/locus/S000000319" } ], "site_lbl": "Ser926" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "92", "end_pos": "92" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1277", "end_pos": "1277" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "926", "end_pos": "926" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07703-1.127.127", "start_pos": 127, "end_pos": 127, "uniprot_canonical_ac": "P07703-1", "length": 335, "uniprot_id": "RPAC1_YEAST", "protein_name": "DNA-directed RNA polymerases I and III subunit RPAC1", "refseq_ac": "NP_015435", "refseq_name": "DNA-directed RNA polymerase core subunit RPC40", "gene_name": "RPC40", "gene_names_uniprotkb": "RPC40; P8283.18; RPC5", "gene_names_refseq": "RPC40; RPC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07703", "url": "https://www.uniprot.org/uniprotkb/P07703" } ], "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": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703", "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": "KVDPDMLTWVDSNLPDDEKF", "down_seq": "DENTIVLSLNVKCTRNPDAP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Thr127" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "127", "end_pos": "127" }, { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07703-1.13.13", "start_pos": 13, "end_pos": 13, "uniprot_canonical_ac": "P07703-1", "length": 335, "uniprot_id": "RPAC1_YEAST", "protein_name": "DNA-directed RNA polymerases I and III subunit RPAC1", "refseq_ac": "NP_015435", "refseq_name": "DNA-directed RNA polymerase core subunit RPC40", "gene_name": "RPC40", "gene_names_uniprotkb": "RPC40; P8283.18; RPC5", "gene_names_refseq": "RPC40; RPC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07703", "url": "https://www.uniprot.org/uniprotkb/P07703" } ], "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": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" } ], "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": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000006314", "url": "https://www.yeastgenome.org/locus/S000006314", "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": "MSNIVGIEYNRV", "down_seq": "NTTSTDFPGFSKDAENEWNV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000006314", "url": "https://www.yeastgenome.org/locus/S000006314" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr13" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "127", "end_pos": "127" }, { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P07703-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07703-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07703-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07703-1.17.17", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07703-1.18.18", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07703-1.24.24", "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": "P07703-1.15.15", "start_pos": 15, "end_pos": 15, "uniprot_canonical_ac": "P07703-1", "length": 335, "uniprot_id": "RPAC1_YEAST", "protein_name": "DNA-directed RNA polymerases I and III subunit RPAC1", "refseq_ac": "NP_015435", "refseq_name": "DNA-directed RNA polymerase core subunit RPC40", "gene_name": "RPC40", "gene_names_uniprotkb": "RPC40; P8283.18; RPC5", "gene_names_refseq": "RPC40; RPC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07703", "url": "https://www.uniprot.org/uniprotkb/P07703" } ], "common_name": "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": "P07703", "url": "https://www.uniprot.org/uniprotkb/P07703" }, { "database": "iPTMnet", "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" } ], "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": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000006314", "url": "https://www.yeastgenome.org/locus/S000006314", "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": "MSNIVGIEYNRVTN", "down_seq": "TSTDFPGFSKDAENEWNVEK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000006314", "url": "https://www.yeastgenome.org/locus/S000006314" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr15" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "127", "end_pos": "127" }, { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P07703-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07703-1.13.13", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07703-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07703-1.17.17", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07703-1.18.18", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07703-1.24.24", "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": "P07703-1.16.16", "start_pos": 16, "end_pos": 16, "uniprot_canonical_ac": "P07703-1", "length": 335, "uniprot_id": "RPAC1_YEAST", "protein_name": "DNA-directed RNA polymerases I and III subunit RPAC1", "refseq_ac": "NP_015435", "refseq_name": "DNA-directed RNA polymerase core subunit RPC40", "gene_name": "RPC40", "gene_names_uniprotkb": "RPC40; P8283.18; RPC5", "gene_names_refseq": "RPC40; RPC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07703", "url": "https://www.uniprot.org/uniprotkb/P07703" } ], "common_name": "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": "P07703", "url": "https://www.uniprot.org/uniprotkb/P07703" }, { "database": "iPTMnet", "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" } ], "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": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000006314", "url": "https://www.yeastgenome.org/locus/S000006314", "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": "MSNIVGIEYNRVTNT", "down_seq": "STDFPGFSKDAENEWNVEKF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000006314", "url": "https://www.yeastgenome.org/locus/S000006314" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr16" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "127", "end_pos": "127" }, { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P07703-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07703-1.13.13", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07703-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07703-1.17.17", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07703-1.18.18", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07703-1.24.24", "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": "P07703-1.17.17", "start_pos": 17, "end_pos": 17, "uniprot_canonical_ac": "P07703-1", "length": 335, "uniprot_id": "RPAC1_YEAST", "protein_name": "DNA-directed RNA polymerases I and III subunit RPAC1", "refseq_ac": "NP_015435", "refseq_name": "DNA-directed RNA polymerase core subunit RPC40", "gene_name": "RPC40", "gene_names_uniprotkb": "RPC40; P8283.18; RPC5", "gene_names_refseq": "RPC40; RPC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07703", "url": "https://www.uniprot.org/uniprotkb/P07703" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07703", "url": "https://www.uniprot.org/uniprotkb/P07703" }, { "database": "iPTMnet", "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" } ], "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": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07703", "url": "https://www.uniprot.org/uniprotkb/P07703", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000006314", "url": "https://www.yeastgenome.org/locus/S000006314", "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": "MSNIVGIEYNRVTNTT", "down_seq": "TDFPGFSKDAENEWNVEKFK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07703", "url": "https://www.uniprot.org/uniprotkb/P07703" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" }, { "database": "SGD", "id": "S000006314", "url": "https://www.yeastgenome.org/locus/S000006314" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser17" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "127", "end_pos": "127" }, { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P07703-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07703-1.13.13", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07703-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07703-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07703-1.18.18", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07703-1.24.24", "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": "P07703-1.18.18", "start_pos": 18, "end_pos": 18, "uniprot_canonical_ac": "P07703-1", "length": 335, "uniprot_id": "RPAC1_YEAST", "protein_name": "DNA-directed RNA polymerases I and III subunit RPAC1", "refseq_ac": "NP_015435", "refseq_name": "DNA-directed RNA polymerase core subunit RPC40", "gene_name": "RPC40", "gene_names_uniprotkb": "RPC40; P8283.18; RPC5", "gene_names_refseq": "RPC40; RPC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07703", "url": "https://www.uniprot.org/uniprotkb/P07703" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000006314", "url": "https://www.yeastgenome.org/locus/S000006314", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703", "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": "MSNIVGIEYNRVTNTTS", "down_seq": "DFPGFSKDAENEWNVEKFKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006314", "url": "https://www.yeastgenome.org/locus/S000006314" }, { "database": "iPTMnet", "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr18" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "127", "end_pos": "127" }, { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P07703-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07703-1.13.13", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07703-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07703-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07703-1.17.17", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07703-1.24.24", "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": "P07703-1.220.220", "start_pos": 220, "end_pos": 220, "uniprot_canonical_ac": "P07703-1", "length": 335, "uniprot_id": "RPAC1_YEAST", "protein_name": "DNA-directed RNA polymerases I and III subunit RPAC1", "refseq_ac": "NP_015435", "refseq_name": "DNA-directed RNA polymerase core subunit RPC40", "gene_name": "RPC40", "gene_names_uniprotkb": "RPC40; P8283.18; RPC5", "gene_names_refseq": "RPC40; RPC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07703", "url": "https://www.uniprot.org/uniprotkb/P07703" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006314", "url": "https://www.yeastgenome.org/locus/S000006314", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703", "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": "QEISLKAHCILGIGGDHAKF", "down_seq": "PVSTASYRLLPQINILQPIK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006314", "url": "https://www.yeastgenome.org/locus/S000006314" }, { "database": "iPTMnet", "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser220" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "127", "end_pos": "127" }, { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P07703-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07703-1.226.226", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07703-1.223.223", "start_pos": 223, "end_pos": 223, "uniprot_canonical_ac": "P07703-1", "length": 335, "uniprot_id": "RPAC1_YEAST", "protein_name": "DNA-directed RNA polymerases I and III subunit RPAC1", "refseq_ac": "NP_015435", "refseq_name": "DNA-directed RNA polymerase core subunit RPC40", "gene_name": "RPC40", "gene_names_uniprotkb": "RPC40; P8283.18; RPC5", "gene_names_refseq": "RPC40; RPC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07703", "url": "https://www.uniprot.org/uniprotkb/P07703" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000006314", "url": "https://www.yeastgenome.org/locus/S000006314", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703", "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": "SLKAHCILGIGGDHAKFSPV", "down_seq": "TASYRLLPQINILQPIKGES", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006314", "url": "https://www.yeastgenome.org/locus/S000006314" }, { "database": "iPTMnet", "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser223" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "127", "end_pos": "127" }, { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P07703-1.220.220", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07703-1.226.226", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07703-1.243.243", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07703-1.226.226", "start_pos": 226, "end_pos": 226, "uniprot_canonical_ac": "P07703-1", "length": 335, "uniprot_id": "RPAC1_YEAST", "protein_name": "DNA-directed RNA polymerases I and III subunit RPAC1", "refseq_ac": "NP_015435", "refseq_name": "DNA-directed RNA polymerase core subunit RPC40", "gene_name": "RPC40", "gene_names_uniprotkb": "RPC40; P8283.18; RPC5", "gene_names_refseq": "RPC40; RPC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07703", "url": "https://www.uniprot.org/uniprotkb/P07703" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006314", "url": "https://www.yeastgenome.org/locus/S000006314", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703", "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": "AHCILGIGGDHAKFSPVSTA", "down_seq": "YRLLPQINILQPIKGESARR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006314", "url": "https://www.yeastgenome.org/locus/S000006314" }, { "database": "iPTMnet", "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" }, { "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": "127", "end_pos": "127" }, { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P07703-1.220.220", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07703-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P07703-1.243.243", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07703-1.243.243", "start_pos": 243, "end_pos": 243, "uniprot_canonical_ac": "P07703-1", "length": 335, "uniprot_id": "RPAC1_YEAST", "protein_name": "DNA-directed RNA polymerases I and III subunit RPAC1", "refseq_ac": "NP_015435", "refseq_name": "DNA-directed RNA polymerase core subunit RPC40", "gene_name": "RPC40", "gene_names_uniprotkb": "RPC40; P8283.18; RPC5", "gene_names_refseq": "RPC40; RPC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07703", "url": "https://www.uniprot.org/uniprotkb/P07703" } ], "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": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" } ], "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": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006314", "url": "https://www.yeastgenome.org/locus/S000006314", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703", "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": "STASYRLLPQINILQPIKGE", "down_seq": "ARRFQKCFPPGVIGIDEGSD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006314", "url": "https://www.yeastgenome.org/locus/S000006314" }, { "database": "iPTMnet", "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser243" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "127", "end_pos": "127" }, { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07703-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P07703-1.226.226", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07703-1.24.24", "start_pos": 24, "end_pos": 24, "uniprot_canonical_ac": "P07703-1", "length": 335, "uniprot_id": "RPAC1_YEAST", "protein_name": "DNA-directed RNA polymerases I and III subunit RPAC1", "refseq_ac": "NP_015435", "refseq_name": "DNA-directed RNA polymerase core subunit RPC40", "gene_name": "RPC40", "gene_names_uniprotkb": "RPC40; P8283.18; RPC5", "gene_names_refseq": "RPC40; RPC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07703", "url": "https://www.uniprot.org/uniprotkb/P07703" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006314", "url": "https://www.yeastgenome.org/locus/S000006314", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703", "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": "IVGIEYNRVTNTTSTDFPGF", "down_seq": "KDAENEWNVEKFKKDFEVNI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006314", "url": "https://www.yeastgenome.org/locus/S000006314" }, { "database": "iPTMnet", "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" }, { "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": "127", "end_pos": "127" }, { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P07703-1.13.13", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P07703-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07703-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P07703-1.17.17", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07703-1.18.18", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07703-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P07703-1", "length": 335, "uniprot_id": "RPAC1_YEAST", "protein_name": "DNA-directed RNA polymerases I and III subunit RPAC1", "refseq_ac": "NP_015435", "refseq_name": "DNA-directed RNA polymerase core subunit RPC40", "gene_name": "RPC40", "gene_names_uniprotkb": "RPC40; P8283.18; RPC5", "gene_names_refseq": "RPC40; RPC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07703", "url": "https://www.uniprot.org/uniprotkb/P07703" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006314", "url": "https://www.yeastgenome.org/locus/S000006314", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703", "database": "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": "NIVGIEYNRVTNTTSTDFPG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006314", "url": "https://www.yeastgenome.org/locus/S000006314" }, { "database": "iPTMnet", "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "127", "end_pos": "127" }, { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "upstream", "id": "P07703-1.13.13", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07703-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07703-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07703-1.17.17", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P07703-1.18.18", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07703-1.45.45", "start_pos": 45, "end_pos": 45, "uniprot_canonical_ac": "P07703-1", "length": 335, "uniprot_id": "RPAC1_YEAST", "protein_name": "DNA-directed RNA polymerases I and III subunit RPAC1", "refseq_ac": "NP_015435", "refseq_name": "DNA-directed RNA polymerase core subunit RPC40", "gene_name": "RPC40", "gene_names_uniprotkb": "RPC40; P8283.18; RPC5", "gene_names_refseq": "RPC40; RPC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07703", "url": "https://www.uniprot.org/uniprotkb/P07703" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000006314", "url": "https://www.yeastgenome.org/locus/S000006314", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703", "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": "KDAENEWNVEKFKKDFEVNI", "down_seq": "SLDAREANFDLINIDTSIAN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006314", "url": "https://www.yeastgenome.org/locus/S000006314" }, { "database": "iPTMnet", "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser45" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "127", "end_pos": "127" }, { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P07703-1.46.46", "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": "P07703-1.46.46", "start_pos": 46, "end_pos": 46, "uniprot_canonical_ac": "P07703-1", "length": 335, "uniprot_id": "RPAC1_YEAST", "protein_name": "DNA-directed RNA polymerases I and III subunit RPAC1", "refseq_ac": "NP_015435", "refseq_name": "DNA-directed RNA polymerase core subunit RPC40", "gene_name": "RPC40", "gene_names_uniprotkb": "RPC40; P8283.18; RPC5", "gene_names_refseq": "RPC40; RPC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07703", "url": "https://www.uniprot.org/uniprotkb/P07703" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006314", "url": "https://www.yeastgenome.org/locus/S000006314", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703", "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": "DAENEWNVEKFKKDFEVNIS", "down_seq": "LDAREANFDLINIDTSIANA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006314", "url": "https://www.yeastgenome.org/locus/S000006314" }, { "database": "iPTMnet", "id": "P07703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07703" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser46" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "127", "end_pos": "127" }, { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P07703-1.45.45", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07834-1.82.82", "start_pos": 82, "end_pos": 82, "uniprot_canonical_ac": "P07834-1", "length": 779, "uniprot_id": "CDC4_YEAST", "protein_name": "Cell division control protein 4", "refseq_ac": "NP_116585", "refseq_name": "SCF ubiquitin ligase complex subunit CDC4", "gene_name": "CDC4", "gene_names_uniprotkb": "CDC4", "gene_names_refseq": "CDC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07834", "url": "https://www.uniprot.org/uniprotkb/P07834" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P07834", "url": "https://www.uniprot.org/uniprotkb/P07834", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "EYQRKRAAGSGESTPERSDF", "down_seq": "RVKHDNHKTLHPVNLQNTGA", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "Prevents nuclear localization; when associated with A-83 and A-85.", "evidence": [ { "database": "UniProtKB", "id": "P07834", "url": "https://www.uniprot.org/uniprotkb/P07834" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "762", "end_pos": "762" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P07834-1.71.71", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07834-1.74.74", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P07834-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07834-1.79.79", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07834-1.83.83", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07834-1.85.85", "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": 0 } ], "sort_fields": [] } ] }, { "id": "P07834-1.83.83", "start_pos": 83, "end_pos": 83, "uniprot_canonical_ac": "P07834-1", "length": 779, "uniprot_id": "CDC4_YEAST", "protein_name": "Cell division control protein 4", "refseq_ac": "NP_116585", "refseq_name": "SCF ubiquitin ligase complex subunit CDC4", "gene_name": "CDC4", "gene_names_uniprotkb": "CDC4", "gene_names_refseq": "CDC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07834", "url": "https://www.uniprot.org/uniprotkb/P07834" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P07834", "url": "https://www.uniprot.org/uniprotkb/P07834", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "YQRKRAAGSGESTPERSDFK", "down_seq": "VKHDNHKTLHPVNLQNTGAA", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "A", "comment": "Prevents nuclear localization; when associated with A-82 and A-85.", "evidence": [ { "database": "UniProtKB", "id": "P07834", "url": "https://www.uniprot.org/uniprotkb/P07834" } ] }, { "sequence_org": "R", "sequence_mut": "G", "comment": "Prevents nuclear localization.", "evidence": [ { "database": "UniProtKB", "id": "P07834", "url": "https://www.uniprot.org/uniprotkb/P07834" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "762", "end_pos": "762" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P07834-1.71.71", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P07834-1.74.74", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07834-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07834-1.79.79", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07834-1.82.82", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07834-1.85.85", "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": 0 } ], "sort_fields": [] } ] }, { "id": "P07834-1.85.85", "start_pos": 85, "end_pos": 85, "uniprot_canonical_ac": "P07834-1", "length": 779, "uniprot_id": "CDC4_YEAST", "protein_name": "Cell division control protein 4", "refseq_ac": "NP_116585", "refseq_name": "SCF ubiquitin ligase complex subunit CDC4", "gene_name": "CDC4", "gene_names_uniprotkb": "CDC4", "gene_names_refseq": "CDC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07834", "url": "https://www.uniprot.org/uniprotkb/P07834" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Nuclear-specific degradation of Far1 is controlled by the localization of the F-box protein Cdc4.", "journal": "The EMBO journal", "date": "2000", "authors": "Blondel M, Galan JM, Chi Y, Lafourcade C, Longaretti C, Deshaies RJ, Peter M", "evidence": [ { "database": "UniProtKB", "id": "P07834", "url": "https://www.uniprot.org/uniprotkb/P07834" } ], "reference": [ { "type": "PubMed", "id": "11080155", "url": "https://glygen.org/publication/PubMed/11080155" } ] } ], "crossref": [ { "id": "P07834", "url": "https://www.uniprot.org/uniprotkb/P07834", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11080155", "url": "https://glygen.org/publication/PubMed/11080155", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "RKRAAGSGESTPERSDFKRV", "down_seq": "HDNHKTLHPVNLQNTGAASV", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "Prevents nuclear localization; when associated with A-82 and A-83.", "evidence": [ { "database": "UniProtKB", "id": "P07834", "url": "https://www.uniprot.org/uniprotkb/P07834" }, { "database": "PubMed", "id": "11080155", "url": "https://glygen.org/publication/PubMed/11080155" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "762", "end_pos": "762" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P07834-1.71.71", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P07834-1.74.74", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P07834-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07834-1.79.79", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07834-1.82.82", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07834-1.83.83", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P07834-1.104.104", "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": "P07834-1.104.104", "start_pos": 104, "end_pos": 104, "uniprot_canonical_ac": "P07834-1", "length": 779, "uniprot_id": "CDC4_YEAST", "protein_name": "Cell division control protein 4", "refseq_ac": "NP_116585", "refseq_name": "SCF ubiquitin ligase complex subunit CDC4", "gene_name": "CDC4", "gene_names_uniprotkb": "CDC4", "gene_names_refseq": "CDC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07834", "url": "https://www.uniprot.org/uniprotkb/P07834" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07834", "url": "https://www.uniprot.org/uniprotkb/P07834" }, { "database": "iPTMnet", "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P07834", "url": "https://www.uniprot.org/uniprotkb/P07834", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VKHDNHKTLHPVNLQNTGAA", "down_seq": "VDNDGLHNLTDISNDAEKLL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07834", "url": "https://www.uniprot.org/uniprotkb/P07834" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" } ], "site_lbl": "Ser104" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "762", "end_pos": "762" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P07834-1.85.85", "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": "P07834-1.185.185", "start_pos": 185, "end_pos": 185, "uniprot_canonical_ac": "P07834-1", "length": 779, "uniprot_id": "CDC4_YEAST", "protein_name": "Cell division control protein 4", "refseq_ac": "NP_116585", "refseq_name": "SCF ubiquitin ligase complex subunit CDC4", "gene_name": "CDC4", "gene_names_uniprotkb": "CDC4", "gene_names_refseq": "CDC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07834", "url": "https://www.uniprot.org/uniprotkb/P07834" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001885", "url": "https://www.yeastgenome.org/locus/S000001885", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SNNVNSATINNPMEEGALPL", "down_seq": "PTASSPGTTTPLAKTTKTIN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001885", "url": "https://www.yeastgenome.org/locus/S000001885" }, { "database": "iPTMnet", "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser185" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "762", "end_pos": "762" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P07834-1.189.189", "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": "P07834-1.189.189", "start_pos": 189, "end_pos": 189, "uniprot_canonical_ac": "P07834-1", "length": 779, "uniprot_id": "CDC4_YEAST", "protein_name": "Cell division control protein 4", "refseq_ac": "NP_116585", "refseq_name": "SCF ubiquitin ligase complex subunit CDC4", "gene_name": "CDC4", "gene_names_uniprotkb": "CDC4", "gene_names_refseq": "CDC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07834", "url": "https://www.uniprot.org/uniprotkb/P07834" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001885", "url": "https://www.yeastgenome.org/locus/S000001885", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NSATINNPMEEGALPLSPTA", "down_seq": "SPGTTTPLAKTTKTINNNNN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001885", "url": "https://www.yeastgenome.org/locus/S000001885" }, { "database": "iPTMnet", "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser189" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "762", "end_pos": "762" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P07834-1.185.185", "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": "P07834-1.28.28", "start_pos": 28, "end_pos": 28, "uniprot_canonical_ac": "P07834-1", "length": 779, "uniprot_id": "CDC4_YEAST", "protein_name": "Cell division control protein 4", "refseq_ac": "NP_116585", "refseq_name": "SCF ubiquitin ligase complex subunit CDC4", "gene_name": "CDC4", "gene_names_uniprotkb": "CDC4", "gene_names_refseq": "CDC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07834", "url": "https://www.uniprot.org/uniprotkb/P07834" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001885", "url": "https://www.yeastgenome.org/locus/S000001885", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EFPLRDIPVPYSYRVSGGIA", "down_seq": "SGSVTALVTAAGTHRNSSTA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001885", "url": "https://www.yeastgenome.org/locus/S000001885" }, { "database": "iPTMnet", "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser28" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "762", "end_pos": "762" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P07834-1.31.31", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07834-1.31.31", "start_pos": 31, "end_pos": 31, "uniprot_canonical_ac": "P07834-1", "length": 779, "uniprot_id": "CDC4_YEAST", "protein_name": "Cell division control protein 4", "refseq_ac": "NP_116585", "refseq_name": "SCF ubiquitin ligase complex subunit CDC4", "gene_name": "CDC4", "gene_names_uniprotkb": "CDC4", "gene_names_refseq": "CDC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07834", "url": "https://www.uniprot.org/uniprotkb/P07834" } ], "common_name": "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": "P07834", "url": "https://www.uniprot.org/uniprotkb/P07834" }, { "database": "iPTMnet", "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" } ], "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": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001885", "url": "https://www.yeastgenome.org/locus/S000001885", "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": "LRDIPVPYSYRVSGGIASSG", "down_seq": "VTALVTAAGTHRNSSTAKTV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001885", "url": "https://www.yeastgenome.org/locus/S000001885" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser31" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "762", "end_pos": "762" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P07834-1.28.28", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07834-1.3.3", "start_pos": 3, "end_pos": 3, "uniprot_canonical_ac": "P07834-1", "length": 779, "uniprot_id": "CDC4_YEAST", "protein_name": "Cell division control protein 4", "refseq_ac": "NP_116585", "refseq_name": "SCF ubiquitin ligase complex subunit CDC4", "gene_name": "CDC4", "gene_names_uniprotkb": "CDC4", "gene_names_refseq": "CDC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07834", "url": "https://www.uniprot.org/uniprotkb/P07834" } ], "common_name": "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": "P07834", "url": "https://www.uniprot.org/uniprotkb/P07834" }, { "database": "iPTMnet", "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" } ], "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": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001885", "url": "https://www.yeastgenome.org/locus/S000001885", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834", "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": "MG", "down_seq": "FPLAEFPLRDIPVPYSYRVS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001885", "url": "https://www.yeastgenome.org/locus/S000001885" }, { "database": "iPTMnet", "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" }, { "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": "Ser3" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "762", "end_pos": "762" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07834-1.53.53", "start_pos": 53, "end_pos": 53, "uniprot_canonical_ac": "P07834-1", "length": 779, "uniprot_id": "CDC4_YEAST", "protein_name": "Cell division control protein 4", "refseq_ac": "NP_116585", "refseq_name": "SCF ubiquitin ligase complex subunit CDC4", "gene_name": "CDC4", "gene_names_uniprotkb": "CDC4", "gene_names_refseq": "CDC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07834", "url": "https://www.uniprot.org/uniprotkb/P07834" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001885", "url": "https://www.yeastgenome.org/locus/S000001885", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834", "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": "TALVTAAGTHRNSSTAKTVE", "down_seq": "EDGEEDIDEYQRKRAAGSGE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001885", "url": "https://www.yeastgenome.org/locus/S000001885" }, { "database": "iPTMnet", "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr53" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "762", "end_pos": "762" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "upstream", "id": "P07834-1.71.71", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07834-1.71.71", "start_pos": 71, "end_pos": 71, "uniprot_canonical_ac": "P07834-1", "length": 779, "uniprot_id": "CDC4_YEAST", "protein_name": "Cell division control protein 4", "refseq_ac": "NP_116585", "refseq_name": "SCF ubiquitin ligase complex subunit CDC4", "gene_name": "CDC4", "gene_names_uniprotkb": "CDC4", "gene_names_refseq": "CDC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07834", "url": "https://www.uniprot.org/uniprotkb/P07834" } ], "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": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" } ], "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": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" } ], "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": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" } ], "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": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" } ], "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": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834", "database": "iPTMnet", "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": "S000001885", "url": "https://www.yeastgenome.org/locus/S000001885", "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": "VETEDGEEDIDEYQRKRAAG", "down_seq": "GESTPERSDFKRVKHDNHKT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" }, { "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": "S000001885", "url": "https://www.yeastgenome.org/locus/S000001885" }, { "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": "Ser71" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "762", "end_pos": "762" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P07834-1.53.53", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07834-1.74.74", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07834-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07834-1.79.79", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07834-1.82.82", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P07834-1.83.83", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07834-1.85.85", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07834-1.74.74", "start_pos": 74, "end_pos": 74, "uniprot_canonical_ac": "P07834-1", "length": 779, "uniprot_id": "CDC4_YEAST", "protein_name": "Cell division control protein 4", "refseq_ac": "NP_116585", "refseq_name": "SCF ubiquitin ligase complex subunit CDC4", "gene_name": "CDC4", "gene_names_uniprotkb": "CDC4", "gene_names_refseq": "CDC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07834", "url": "https://www.uniprot.org/uniprotkb/P07834" } ], "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": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" } ], "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": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" } ], "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": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000001885", "url": "https://www.yeastgenome.org/locus/S000001885", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EDGEEDIDEYQRKRAAGSGE", "down_seq": "TPERSDFKRVKHDNHKTLHP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001885", "url": "https://www.yeastgenome.org/locus/S000001885" }, { "database": "iPTMnet", "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser74" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "762", "end_pos": "762" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P07834-1.71.71", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07834-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07834-1.79.79", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07834-1.82.82", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07834-1.83.83", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07834-1.85.85", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07834-1.75.75", "start_pos": 75, "end_pos": 75, "uniprot_canonical_ac": "P07834-1", "length": 779, "uniprot_id": "CDC4_YEAST", "protein_name": "Cell division control protein 4", "refseq_ac": "NP_116585", "refseq_name": "SCF ubiquitin ligase complex subunit CDC4", "gene_name": "CDC4", "gene_names_uniprotkb": "CDC4", "gene_names_refseq": "CDC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07834", "url": "https://www.uniprot.org/uniprotkb/P07834" } ], "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": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "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": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" } ], "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": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" } ], "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": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" } ], "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": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001885", "url": "https://www.yeastgenome.org/locus/S000001885", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "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": "DGEEDIDEYQRKRAAGSGES", "down_seq": "PERSDFKRVKHDNHKTLHPV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001885", "url": "https://www.yeastgenome.org/locus/S000001885" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr75" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "762", "end_pos": "762" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P07834-1.71.71", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07834-1.74.74", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07834-1.79.79", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07834-1.82.82", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07834-1.83.83", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07834-1.85.85", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07834-1.762.762", "start_pos": 762, "end_pos": 762, "uniprot_canonical_ac": "P07834-1", "length": 779, "uniprot_id": "CDC4_YEAST", "protein_name": "Cell division control protein 4", "refseq_ac": "NP_116585", "refseq_name": "SCF ubiquitin ligase complex subunit CDC4", "gene_name": "CDC4", "gene_names_uniprotkb": "CDC4", "gene_names_refseq": "CDC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07834", "url": "https://www.uniprot.org/uniprotkb/P07834" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001885", "url": "https://www.yeastgenome.org/locus/S000001885", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DFSKASKINYVSNPVNSSSS", "down_seq": "LESISTSLGLTRTTIIP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001885", "url": "https://www.yeastgenome.org/locus/S000001885" }, { "database": "iPTMnet", "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser762" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "762", "end_pos": "762" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07834-1.79.79", "start_pos": 79, "end_pos": 79, "uniprot_canonical_ac": "P07834-1", "length": 779, "uniprot_id": "CDC4_YEAST", "protein_name": "Cell division control protein 4", "refseq_ac": "NP_116585", "refseq_name": "SCF ubiquitin ligase complex subunit CDC4", "gene_name": "CDC4", "gene_names_uniprotkb": "CDC4", "gene_names_refseq": "CDC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07834", "url": "https://www.uniprot.org/uniprotkb/P07834" } ], "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": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" } ], "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": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" } ], "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": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834", "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" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DIDEYQRKRAAGSGESTPER", "down_seq": "DFKRVKHDNHKTLHPVNLQN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07834", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07834" }, { "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": "Ser79" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "762", "end_pos": "762" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P07834-1.71.71", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07834-1.74.74", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07834-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07834-1.82.82", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07834-1.83.83", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07834-1.85.85", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.12.12", "start_pos": 12, "end_pos": 12, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "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": "MEIFSQKDYYP", "down_seq": "PSSNVISYESDCVSKPVNSA", "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": "Thr12", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "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": "P07866-1.317.317", "start_pos": 317, "end_pos": 317, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "TLMKGVDYPSSYAVDKIMPP", "down_seq": "PAKKVEFILNSLYIPEDLNE", "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": "Thr317", "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": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "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": "Thr317" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P07866-1.306.306", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P07866-1.307.307", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.1028.1028", "start_pos": 1028, "end_pos": 1028, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "J. Proteome Res.", "date": "2007", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866", "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "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": "TMDDIDINDTSSARNTRRAN", "down_seq": "ESAFTGSLNKKNLNEIANML", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "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": "Ser1028" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P07866-1.1030.1030", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07866-1.1033.1033", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07866-1.1035.1035", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07866-1.1030.1030", "start_pos": 1030, "end_pos": 1030, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "DDIDINDTSSARNTRRANSE", "down_seq": "AFTGSLNKKNLNEIANMLDD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1030" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07866-1.1028.1028", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07866-1.1033.1033", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07866-1.1035.1035", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.1033.1033", "start_pos": 1033, "end_pos": 1033, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "DINDTSSARNTRRANSESAF", "down_seq": "GSLNKKNLNEIANMLDDSIN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr1033" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P07866-1.1028.1028", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07866-1.1030.1030", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07866-1.1035.1035", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.1035.1035", "start_pos": 1035, "end_pos": 1035, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "NDTSSARNTRRANSESAFTG", "down_seq": "LNKKNLNEIANMLDDSINDD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "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": "Ser1035" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P07866-1.1028.1028", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07866-1.1030.1030", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07866-1.1033.1033", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07866-1.1078.1078", "start_pos": 1078, "end_pos": 1078, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "TVALMKLEGTYEKIPEKPEN", "down_seq": "KSSDAIGIKTSKLADEVEML", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" } ], "site_lbl": "Thr1078" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P07866-1.1080.1080", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.1080.1080", "start_pos": 1080, "end_pos": 1080, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "ALMKLEGTYEKIPEKPENTK", "down_seq": "SDAIGIKTSKLADEVEMLNL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1080" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07866-1.1078.1078", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.1105.1105", "start_pos": 1105, "end_pos": 1105, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "GIKTSKLADEVEMLNLNNLP", "down_seq": "FQNSPAEKRKSLLIERRRQT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser1105" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P07866-1.1109.1109", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07866-1.1116.1116", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07866-1.1125.1125", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.1109.1109", "start_pos": 1109, "end_pos": 1109, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "SKLADEVEMLNLNNLPSFQN", "down_seq": "PAEKRKSLLIERRRQTIMNI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "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": "Ser1109" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P07866-1.1105.1105", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07866-1.1116.1116", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P07866-1.1125.1125", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07866-1.1116.1116", "start_pos": 1116, "end_pos": 1116, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EMLNLNNLPSFQNSPAEKRK", "down_seq": "LLIERRRQTIMNIPFTPDQS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1116" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P07866-1.1105.1105", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P07866-1.1109.1109", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07866-1.1125.1125", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P07866-1.1132.1132", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07866-1.1136.1136", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.1125.1125", "start_pos": 1125, "end_pos": 1125, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "SFQNSPAEKRKSLLIERRRQ", "down_seq": "IMNIPFTPDQSEKEGFTSSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr1125" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07866-1.1105.1105", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P07866-1.1109.1109", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P07866-1.1116.1116", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07866-1.1132.1132", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07866-1.1136.1136", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07866-1.1145.1145", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.1132.1132", "start_pos": 1132, "end_pos": 1132, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "EKRKSLLIERRRQTIMNIPF", "down_seq": "PDQSEKEGFTSSSPEKIDVS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr1132" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P07866-1.1116.1116", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P07866-1.1125.1125", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07866-1.1136.1136", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07866-1.1145.1145", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.1136.1136", "start_pos": 1136, "end_pos": 1136, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "SLLIERRRQTIMNIPFTPDQ", "down_seq": "EKEGFTSSSPEKIDVSANVD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1136" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07866-1.1116.1116", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P07866-1.1125.1125", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07866-1.1132.1132", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07866-1.1145.1145", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.1145.1145", "start_pos": 1145, "end_pos": 1145, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "TIMNIPFTPDQSEKEGFTSS", "down_seq": "PEKIDVSANVDVAVQAAQIQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1145" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07866-1.1125.1125", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P07866-1.1132.1132", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P07866-1.1136.1136", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.1176.1176", "start_pos": 1176, "end_pos": 1176, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DVAVQAAQIQELIGQYRIHD", "down_seq": "RLMISNNESHVPFILMYDSL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1176" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.1340.1340", "start_pos": 1340, "end_pos": 1340, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "PGDLLTWEELKKIPSLDRNY", "down_seq": "TIRNLLNSVNPLVGCVPFIV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser1340" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.194.194", "start_pos": 194, "end_pos": 194, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DKLDFDAWLHYSLKDFTQLE", "down_seq": "LHKRGSRLSIYARQSFASPD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser194" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P07866-1.200.200", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07866-1.203.203", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07866-1.209.209", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P07866-1.212.212", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.200.200", "start_pos": 200, "end_pos": 200, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "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": "AWLHYSLKDFTQLESLHKRG", "down_seq": "RLSIYARQSFASPDFRNQSV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser200" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P07866-1.194.194", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07866-1.203.203", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07866-1.209.209", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P07866-1.212.212", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P07866-1.219.219", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.203.203", "start_pos": 203, "end_pos": 203, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "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": "HYSLKDFTQLESLHKRGSRL", "down_seq": "IYARQSFASPDFRNQSVLSL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser203" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P07866-1.194.194", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07866-1.200.200", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07866-1.209.209", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07866-1.212.212", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P07866-1.219.219", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P07866-1.222.222", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.209.209", "start_pos": 209, "end_pos": 209, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "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": "FTQLESLHKRGSRLSIYARQ", "down_seq": "FASPDFRNQSVLSLYKTSDV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "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": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P07866-1.194.194", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P07866-1.200.200", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07866-1.203.203", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07866-1.212.212", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07866-1.219.219", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07866-1.222.222", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P07866-1.227.227", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.212.212", "start_pos": 212, "end_pos": 212, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "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": "LESLHKRGSRLSIYARQSFA", "down_seq": "PDFRNQSVLSLYKTSDVFRL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P00546-1", "kinase_gene_name": "CDC28", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ], "site_lbl": "Ser212" }, { "kinase_uniprot_canonical_ac": "P24869-1", "kinase_gene_name": "CLB2", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ], "site_lbl": "Ser212" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "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": "Ser212" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P07866-1.194.194", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P07866-1.200.200", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P07866-1.203.203", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07866-1.209.209", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07866-1.219.219", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07866-1.222.222", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07866-1.227.227", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.219.219", "start_pos": 219, "end_pos": 219, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "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": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "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": "GSRLSIYARQSFASPDFRNQ", "down_seq": "VLSLYKTSDVFRLPEKLQSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "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": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "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": "Ser219" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P07866-1.200.200", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P07866-1.203.203", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P07866-1.209.209", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P07866-1.212.212", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07866-1.222.222", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07866-1.227.227", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.222.222", "start_pos": 222, "end_pos": 222, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "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": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "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": "LSIYARQSFASPDFRNQSVL", "down_seq": "LYKTSDVFRLPEKLQSSNSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "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": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "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": "Ser222" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P07866-1.203.203", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P07866-1.209.209", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P07866-1.212.212", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07866-1.219.219", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07866-1.227.227", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.227.227", "start_pos": 227, "end_pos": 227, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RQSFASPDFRNQSVLSLYKT", "down_seq": "DVFRLPEKLQSSNSSKNQRS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser227" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P07866-1.209.209", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P07866-1.212.212", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07866-1.219.219", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07866-1.222.222", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07866-1.247.247", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.247.247", "start_pos": 247, "end_pos": 247, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "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": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "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": "SDVFRLPEKLQSSNSSKNQR", "down_seq": "PSMLLFPDNTSNVYSKHRIA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "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": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "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": "Ser247" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07866-1.227.227", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07866-1.249.249", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.249.249", "start_pos": 249, "end_pos": 249, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "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": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "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": "VFRLPEKLQSSNSSKNQRSP", "down_seq": "MLLFPDNTSNVYSKHRIAKE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "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": "Ser249" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07866-1.247.247", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.271.271", "start_pos": 271, "end_pos": 271, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "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": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "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": "LLFPDNTSNVYSKHRIAKEP", "down_seq": "VDNESEDMSDSKQKISHLSK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser271" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P07866-1.276.276", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07866-1.280.280", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07866-1.282.282", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.276.276", "start_pos": 276, "end_pos": 276, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "NTSNVYSKHRIAKEPSVDNE", "down_seq": "EDMSDSKQKISHLSKVTLVS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "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": "Ser276" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P07866-1.271.271", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07866-1.280.280", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07866-1.282.282", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P07866-1.293.293", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07866-1.296.296", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.280.280", "start_pos": 280, "end_pos": 280, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VYSKHRIAKEPSVDNESEDM", "down_seq": "DSKQKISHLSKVTLVSTLMK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser280" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P07866-1.271.271", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07866-1.276.276", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07866-1.282.282", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07866-1.293.293", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P07866-1.296.296", "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": "P07866-1.282.282", "start_pos": 282, "end_pos": 282, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SKHRIAKEPSVDNESEDMSD", "down_seq": "KQKISHLSKVTLVSTLMKGV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser282" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P07866-1.271.271", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07866-1.276.276", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07866-1.280.280", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07866-1.293.293", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07866-1.296.296", "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": "P07866-1.293.293", "start_pos": 293, "end_pos": 293, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "DNESEDMSDSKQKISHLSKV", "down_seq": "LVSTLMKGVDYPSSYAVDKI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr293" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P07866-1.276.276", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P07866-1.280.280", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P07866-1.282.282", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07866-1.296.296", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07866-1.306.306", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07866-1.307.307", "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": "P07866-1.296.296", "start_pos": 296, "end_pos": 296, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "SEDMSDSKQKISHLSKVTLV", "down_seq": "TLMKGVDYPSSYAVDKIMPP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser296" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07866-1.276.276", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P07866-1.280.280", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P07866-1.282.282", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07866-1.293.293", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07866-1.306.306", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07866-1.307.307", "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": "P07866-1.306.306", "start_pos": 306, "end_pos": 306, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "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": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "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": "ISHLSKVTLVSTLMKGVDYP", "down_seq": "SYAVDKIMPPTPAKKVEFIL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "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": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser306" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P07866-1.293.293", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P07866-1.296.296", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07866-1.307.307", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07866-1.317.317", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.307.307", "start_pos": 307, "end_pos": 307, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "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": "SHLSKVTLVSTLMKGVDYPS", "down_seq": "YAVDKIMPPTPAKKVEFILN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "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": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser307" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P07866-1.293.293", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P07866-1.296.296", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07866-1.306.306", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07866-1.317.317", "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": "P07866-1.363.363", "start_pos": 363, "end_pos": 363, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "QGTSTTSSLDNNSNSNSRSN", "down_seq": "SSMSVLHRSAIGLLAKWMKN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr363" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P07866-1.365.365", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07866-1.372.372", "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": "P07866-1.365.365", "start_pos": 365, "end_pos": 365, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TSTTSSLDNNSNSNSRSNTS", "down_seq": "MSVLHRSAIGLLAKWMKNHN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser365" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07866-1.363.363", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07866-1.372.372", "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": "P07866-1.372.372", "start_pos": 372, "end_pos": 372, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "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": "DNNSNSNSRSNTSSMSVLHR", "down_seq": "AIGLLAKWMKNHNRHDSSND", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser372" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P07866-1.363.363", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P07866-1.365.365", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.420.420", "start_pos": 420, "end_pos": 420, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KPANQKPEMDAFVKYVVSIS", "down_seq": "LNRKSSKEEEEEFLNSDSSK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser420" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.454.454", "start_pos": 454, "end_pos": 454, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LNSDSSKFDILSARTIDEVE", "down_seq": "LLHLQNQLIEKVQTHSNNNR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser454" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "upstream", "id": "P07866-1.468.468", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P07866-1.470.470", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.468.468", "start_pos": 468, "end_pos": 468, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "TIDEVESLLHLQNQLIEKVQ", "down_seq": "HSNNNRGPTVNVDCERREHI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr468" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P07866-1.454.454", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07866-1.470.470", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.470.470", "start_pos": 470, "end_pos": 470, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DEVESLLHLQNQLIEKVQTH", "down_seq": "NNNRGPTVNVDCERREHIHD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser470" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P07866-1.454.454", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07866-1.468.468", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.502.502", "start_pos": 502, "end_pos": 502, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "CERREHIHDIKILQQNSFKP", "down_seq": "NDNFSAMDNLDLYQTVSSIA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser502" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.527.527", "start_pos": 527, "end_pos": 527, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "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": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SAMDNLDLYQTVSSIAQSVI", "down_seq": "LTNTLNKQLQNNESNMQPSP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" } ], "site_lbl": "Ser527" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "upstream", "id": "P07866-1.546.546", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.546.546", "start_pos": 546, "end_pos": 546, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "ISLTNTLNKQLQNNESNMQP", "down_seq": "PSYDALQRRKVKSLTTAYYN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser546" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P07866-1.527.527", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07866-1.548.548", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07866-1.559.559", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07866-1.561.561", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.548.548", "start_pos": 548, "end_pos": 548, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "LTNTLNKQLQNNESNMQPSP", "down_seq": "YDALQRRKVKSLTTAYYNKM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "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": "Ser548" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07866-1.546.546", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07866-1.559.559", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07866-1.561.561", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.559.559", "start_pos": 559, "end_pos": 559, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "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": "NESNMQPSPSYDALQRRKVK", "down_seq": "LTTAYYNKMHGSYSAESMRL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "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": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "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": "Ser559" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P07866-1.546.546", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P07866-1.548.548", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07866-1.561.561", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P07866-1.571.571", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07866-1.573.573", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P07866-1.576.576", "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": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.561.561", "start_pos": 561, "end_pos": 561, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "SNMQPSPSYDALQRRKVKSL", "down_seq": "TAYYNKMHGSYSAESMRLFD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr561" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P07866-1.546.546", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P07866-1.548.548", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07866-1.559.559", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07866-1.571.571", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P07866-1.573.573", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07866-1.576.576", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.571.571", "start_pos": 571, "end_pos": 571, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "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": "ALQRRKVKSLTTAYYNKMHG", "down_seq": "YSAESMRLFDKDNSSSRTDE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser571" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P07866-1.559.559", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P07866-1.561.561", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07866-1.573.573", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07866-1.576.576", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07866-1.585.585", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07866-1.586.586", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07866-1.573.573", "start_pos": 573, "end_pos": 573, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "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": "QRRKVKSLTTAYYNKMHGSY", "down_seq": "AESMRLFDKDNSSSRTDENG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "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": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "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": "Ser573" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P07866-1.559.559", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P07866-1.561.561", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07866-1.571.571", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07866-1.576.576", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P07866-1.585.585", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07866-1.586.586", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07866-1.576.576", "start_pos": 576, "end_pos": 576, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "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": "KVKSLTTAYYNKMHGSYSAE", "down_seq": "MRLFDKDNSSSRTDENGPQR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser576" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P07866-1.559.559", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P07866-1.561.561", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07866-1.571.571", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07866-1.573.573", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07866-1.585.585", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07866-1.586.586", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.585.585", "start_pos": 585, "end_pos": 585, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "YNKMHGSYSAESMRLFDKDN", "down_seq": "SSRTDENGPQRLLFHETDKT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser585" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P07866-1.571.571", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P07866-1.573.573", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P07866-1.576.576", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07866-1.586.586", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.586.586", "start_pos": 586, "end_pos": 586, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "NKMHGSYSAESMRLFDKDNS", "down_seq": "SRTDENGPQRLLFHETDKTN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser586" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P07866-1.571.571", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P07866-1.573.573", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P07866-1.576.576", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07866-1.585.585", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.614.614", "start_pos": 614, "end_pos": 614, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "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": "PQRLLFHETDKTNSEAITNM", "down_seq": "PRRKNHSQSQKSMTSSPLKN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr614" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "upstream", "id": "P07866-1.626.626", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07866-1.628.628", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07866-1.629.629", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P07866-1.630.630", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.626.626", "start_pos": 626, "end_pos": 626, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "NSEAITNMTPRRKNHSQSQK", "down_seq": "MTSSPLKNVLPDLKESSPLN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser626" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P07866-1.614.614", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07866-1.628.628", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07866-1.629.629", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07866-1.630.630", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P07866-1.643.643", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.628.628", "start_pos": 628, "end_pos": 628, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "EAITNMTPRRKNHSQSQKSM", "down_seq": "SSPLKNVLPDLKESSPLNDS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr628" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P07866-1.614.614", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07866-1.626.626", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07866-1.629.629", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07866-1.630.630", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07866-1.643.643", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.629.629", "start_pos": 629, "end_pos": 629, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "AITNMTPRRKNHSQSQKSMT", "down_seq": "SPLKNVLPDLKESSPLNDSR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser629" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P07866-1.614.614", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07866-1.626.626", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07866-1.628.628", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07866-1.630.630", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07866-1.643.643", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.630.630", "start_pos": 630, "end_pos": 630, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "ITNMTPRRKNHSQSQKSMTS", "down_seq": "PLKNVLPDLKESSPLNDSRE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser630" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P07866-1.614.614", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07866-1.626.626", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07866-1.628.628", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07866-1.629.629", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07866-1.643.643", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07866-1.643.643", "start_pos": 643, "end_pos": 643, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SQKSMTSSPLKNVLPDLKES", "down_seq": "PLNDSREDTESITYSYDSEL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "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": "Ser643" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P07866-1.626.626", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P07866-1.628.628", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P07866-1.629.629", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P07866-1.630.630", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07866-1.654.654", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07866-1.654.654", "start_pos": 654, "end_pos": 654, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NVLPDLKESSPLNDSREDTE", "down_seq": "ITYSYDSELSSSSPPRDTVT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser654" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P07866-1.643.643", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07866-1.667.667", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.667.667", "start_pos": 667, "end_pos": 667, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DSREDTESITYSYDSELSSS", "down_seq": "PPRDTVTKKSRKVRNIVNNT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser667" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P07866-1.654.654", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07866-1.687.687", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.687.687", "start_pos": 687, "end_pos": 687, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "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": "SPPRDTVTKKSRKVRNIVNN", "down_seq": "DSPTLKTKTGFLNLREFTFE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr687" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07866-1.667.667", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07866-1.689.689", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07866-1.691.691", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P07866-1.705.705", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.689.689", "start_pos": 689, "end_pos": 689, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "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": "PRDTVTKKSRKVRNIVNNTD", "down_seq": "PTLKTKTGFLNLREFTFEDT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "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": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "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": "Ser689" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07866-1.687.687", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07866-1.691.691", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P07866-1.705.705", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07866-1.709.709", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07866-1.691.691", "start_pos": 691, "end_pos": 691, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "J. Proteome Res.", "date": "2007", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "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": "DTVTKKSRKVRNIVNNTDSP", "down_seq": "LKTKTGFLNLREFTFEDTKS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "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": "Thr691" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P07866-1.687.687", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07866-1.689.689", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07866-1.705.705", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P07866-1.709.709", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07866-1.711.711", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07866-1.705.705", "start_pos": 705, "end_pos": 705, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "NNTDSPTLKTKTGFLNLREF", "down_seq": "FEDTKSLDEKKSTIDGLEKN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr705" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P07866-1.687.687", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P07866-1.689.689", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P07866-1.691.691", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07866-1.709.709", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07866-1.711.711", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P07866-1.717.717", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07866-1.718.718", "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": "P07866-1.709.709", "start_pos": 709, "end_pos": 709, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "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": "SPTLKTKTGFLNLREFTFED", "down_seq": "KSLDEKKSTIDGLEKNYDNK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr709" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07866-1.689.689", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P07866-1.691.691", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07866-1.705.705", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07866-1.711.711", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07866-1.717.717", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07866-1.718.718", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.711.711", "start_pos": 711, "end_pos": 711, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "TLKTKTGFLNLREFTFEDTK", "down_seq": "LDEKKSTIDGLEKNYDNKEN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "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": "Ser711" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07866-1.691.691", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07866-1.705.705", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07866-1.709.709", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07866-1.717.717", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07866-1.718.718", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.717.717", "start_pos": 717, "end_pos": 717, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "GFLNLREFTFEDTKSLDEKK", "down_seq": "TIDGLEKNYDNKENQESEYE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser717" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P07866-1.705.705", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07866-1.709.709", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07866-1.711.711", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07866-1.718.718", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P07866-1.734.734", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.718.718", "start_pos": 718, "end_pos": 718, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "FLNLREFTFEDTKSLDEKKS", "down_seq": "IDGLEKNYDNKENQESEYES", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr718" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P07866-1.705.705", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P07866-1.709.709", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P07866-1.711.711", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07866-1.717.717", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P07866-1.734.734", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.734.734", "start_pos": 734, "end_pos": 734, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EKKSTIDGLEKNYDNKENQE", "down_seq": "EYESTKKLDNSLDASSEANN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser734" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P07866-1.717.717", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P07866-1.718.718", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07866-1.745.745", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P07866-1.750.750", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.745.745", "start_pos": 745, "end_pos": 745, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "NYDNKENQESEYESTKKLDN", "down_seq": "LDASSEANNYDITTRKKHSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "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": "Ser745" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P07866-1.734.734", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07866-1.750.750", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07866-1.755.755", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07866-1.750.750", "start_pos": 750, "end_pos": 750, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "ENQESEYESTKKLDNSLDAS", "down_seq": "EANNYDITTRKKHSSCNHKI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "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": "Ser750" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P07866-1.734.734", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07866-1.745.745", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07866-1.755.755", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07866-1.755.755", "start_pos": 755, "end_pos": 755, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "EYESTKKLDNSLDASSEANN", "down_seq": "DITTRKKHSSCNHKIKQAVV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Tyr755" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P07866-1.745.745", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07866-1.750.750", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.779.779", "start_pos": 779, "end_pos": 779, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "TRKKHSSCNHKIKQAVVRPA", "down_seq": "GRISISRVQSIAITPTKELS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "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": "Ser779" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P07866-1.783.783", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07866-1.789.789", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07866-1.793.793", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P07866-1.795.795", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07866-1.799.799", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07866-1.783.783", "start_pos": 783, "end_pos": 783, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "HSSCNHKIKQAVVRPASGRI", "down_seq": "ISRVQSIAITPTKELSIVDP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser783" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P07866-1.779.779", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07866-1.789.789", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07866-1.793.793", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P07866-1.795.795", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P07866-1.799.799", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.789.789", "start_pos": 789, "end_pos": 789, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "KIKQAVVRPASGRISISRVQ", "down_seq": "IAITPTKELSIVDPEQNKSN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "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": "Ser789" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P07866-1.779.779", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07866-1.783.783", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07866-1.793.793", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07866-1.795.795", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07866-1.799.799", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P07866-1.808.808", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07866-1.793.793", "start_pos": 793, "end_pos": 793, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "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": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "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": "AVVRPASGRISISRVQSIAI", "down_seq": "PTKELSIVDPEQNKSNSVIE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "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": "Thr793" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P07866-1.779.779", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P07866-1.783.783", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07866-1.789.789", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07866-1.795.795", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07866-1.799.799", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07866-1.808.808", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P07866-1.810.810", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07866-1.795.795", "start_pos": 795, "end_pos": 795, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "VRPASGRISISRVQSIAITP", "down_seq": "KELSIVDPEQNKSNSVIEEI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr795" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P07866-1.779.779", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P07866-1.783.783", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07866-1.789.789", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07866-1.793.793", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07866-1.799.799", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07866-1.808.808", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07866-1.810.810", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.799.799", "start_pos": 799, "end_pos": 799, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "SGRISISRVQSIAITPTKEL", "down_seq": "IVDPEQNKSNSVIEEISEIE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser799" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07866-1.779.779", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P07866-1.783.783", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P07866-1.789.789", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07866-1.793.793", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07866-1.795.795", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07866-1.808.808", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07866-1.810.810", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P07866-1.816.816", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.808.808", "start_pos": 808, "end_pos": 808, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QSIAITPTKELSIVDPEQNK", "down_seq": "NSVIEEISEIEPLNLEYNKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "site_lbl": "Ser808" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P07866-1.789.789", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P07866-1.793.793", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P07866-1.795.795", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P07866-1.799.799", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07866-1.810.810", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07866-1.816.816", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.810.810", "start_pos": 810, "end_pos": 810, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IAITPTKELSIVDPEQNKSN", "down_seq": "VIEEISEIEPLNLEYNKKSA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "site_lbl": "Ser810" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P07866-1.793.793", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P07866-1.795.795", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P07866-1.799.799", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07866-1.808.808", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07866-1.816.816", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.816.816", "start_pos": 816, "end_pos": 816, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KELSIVDPEQNKSNSVIEEI", "down_seq": "EIEPLNLEYNKKSALYSDTS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser816" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P07866-1.799.799", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07866-1.808.808", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07866-1.810.810", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.850.850", "start_pos": 850, "end_pos": 850, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "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": "ALYSDTSSTVISISTSKLFE", "down_seq": "AQNSPLKQTQNPQREFPNGT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "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": "Ser850" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P07866-1.854.854", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.854.854", "start_pos": 854, "end_pos": 854, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "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": "DTSSTVISISTSKLFESAQN", "down_seq": "PLKQTQNPQREFPNGTSVSE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "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": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "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": "Ser854" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P07866-1.850.850", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P07866-1.871.871", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07866-1.871.871", "start_pos": 871, "end_pos": 871, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AQNSPLKQTQNPQREFPNGT", "down_seq": "VSETNRIRLSIAPTIESVVS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser871" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P07866-1.854.854", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.934.934", "start_pos": 934, "end_pos": 934, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "PHQRIINLREEYQRGNQDII", "down_seq": "NTSSLHELKTIDLSDSNNDL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser934" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P07866-1.936.936", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07866-1.937.937", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07866-1.938.938", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07866-1.944.944", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07866-1.948.948", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P07866-1.950.950", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.936.936", "start_pos": 936, "end_pos": 936, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "QRIINLREEYQRGNQDIISN", "down_seq": "SSLHELKTIDLSDSNNDLES", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr936" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P07866-1.934.934", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07866-1.937.937", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07866-1.938.938", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07866-1.944.944", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P07866-1.948.948", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07866-1.950.950", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07866-1.956.956", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.937.937", "start_pos": 937, "end_pos": 937, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "RIINLREEYQRGNQDIISNT", "down_seq": "SLHELKTIDLSDSNNDLESP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "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": "Ser937" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P07866-1.934.934", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07866-1.936.936", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07866-1.938.938", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07866-1.944.944", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07866-1.948.948", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07866-1.950.950", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P07866-1.956.956", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07866-1.938.938", "start_pos": 938, "end_pos": 938, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "IINLREEYQRGNQDIISNTS", "down_seq": "LHELKTIDLSDSNNDLESPS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "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": "Ser938" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P07866-1.934.934", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07866-1.936.936", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07866-1.937.937", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07866-1.944.944", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07866-1.948.948", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P07866-1.950.950", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P07866-1.956.956", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07866-1.958.958", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07866-1.944.944", "start_pos": 944, "end_pos": 944, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "EYQRGNQDIISNTSSLHELK", "down_seq": "IDLSDSNNDLESPSTHAKNN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr944" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P07866-1.934.934", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07866-1.936.936", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P07866-1.937.937", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07866-1.938.938", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P07866-1.948.948", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07866-1.950.950", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P07866-1.956.956", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P07866-1.958.958", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07866-1.959.959", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.948.948", "start_pos": 948, "end_pos": 948, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "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": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "GNQDIISNTSSLHELKTIDL", "down_seq": "DSNNDLESPSTHAKNNKYFF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "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": "Ser948" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P07866-1.934.934", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P07866-1.936.936", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P07866-1.937.937", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P07866-1.938.938", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P07866-1.944.944", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07866-1.950.950", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07866-1.956.956", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07866-1.958.958", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07866-1.959.959", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P07866-1.966.966", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07866-1.950.950", "start_pos": 950, "end_pos": 950, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "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": "QDIISNTSSLHELKTIDLSD", "down_seq": "NNDLESPSTHAKNNKYFFSP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "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": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "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": "Ser950" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P07866-1.934.934", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P07866-1.936.936", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P07866-1.937.937", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P07866-1.938.938", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07866-1.944.944", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07866-1.948.948", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P07866-1.956.956", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07866-1.958.958", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P07866-1.959.959", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P07866-1.966.966", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P07866-1.969.969", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07866-1.956.956", "start_pos": 956, "end_pos": 956, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "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": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TSSLHELKTIDLSDSNNDLE", "down_seq": "PSTHAKNNKYFFSPDDGSID", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "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": "Ser956" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07866-1.936.936", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P07866-1.937.937", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P07866-1.938.938", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P07866-1.944.944", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07866-1.948.948", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P07866-1.950.950", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P07866-1.958.958", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07866-1.959.959", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07866-1.966.966", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07866-1.969.969", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P07866-1.974.974", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.958.958", "start_pos": 958, "end_pos": 958, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "SLHELKTIDLSDSNNDLESP", "down_seq": "THAKNNKYFFSPDDGSIDVA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser958" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07866-1.938.938", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P07866-1.944.944", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P07866-1.948.948", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07866-1.950.950", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P07866-1.956.956", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P07866-1.959.959", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07866-1.966.966", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P07866-1.969.969", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P07866-1.974.974", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.959.959", "start_pos": 959, "end_pos": 959, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "LHELKTIDLSDSNNDLESPS", "down_seq": "HAKNNKYFFSPDDGSIDVAS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr959" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P07866-1.944.944", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P07866-1.948.948", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P07866-1.950.950", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07866-1.956.956", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P07866-1.958.958", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P07866-1.966.966", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07866-1.969.969", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P07866-1.974.974", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P07866-1.979.979", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.966.966", "start_pos": 966, "end_pos": 966, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "DLSDSNNDLESPSTHAKNNK", "down_seq": "FFSPDDGSIDVASPMKNVEE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Tyr966" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P07866-1.948.948", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P07866-1.950.950", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P07866-1.956.956", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07866-1.958.958", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P07866-1.959.959", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P07866-1.969.969", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P07866-1.974.974", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P07866-1.979.979", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.969.969", "start_pos": 969, "end_pos": 969, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "DSNNDLESPSTHAKNNKYFF", "down_seq": "PDDGSIDVASPMKNVEELKS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser969" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P07866-1.950.950", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P07866-1.956.956", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P07866-1.958.958", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P07866-1.959.959", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P07866-1.966.966", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07866-1.974.974", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P07866-1.979.979", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.974.974", "start_pos": 974, "end_pos": 974, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "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": "LESPSTHAKNNKYFFSPDDG", "down_seq": "IDVASPMKNVEELKSKFLKN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "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": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P07866-1.956.956", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P07866-1.958.958", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P07866-1.959.959", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P07866-1.966.966", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07866-1.969.969", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P07866-1.979.979", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07866-1.979.979", "start_pos": 979, "end_pos": 979, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "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": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "THAKNNKYFFSPDDGSIDVA", "down_seq": "PMKNVEELKSKFLKNESETN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "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": "Ser979" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P07866-1.959.959", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P07866-1.966.966", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P07866-1.969.969", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P07866-1.974.974", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P07866-1.996.996", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P07866-1.996.996", "start_pos": 996, "end_pos": 996, "uniprot_canonical_ac": "P07866-1", "length": 1435, "uniprot_id": "LTE1_YEAST", "protein_name": "Guanine nucleotide exchange factor LTE1", "refseq_ac": "NP_009378", "refseq_name": "mitotic regulator LTE1", "gene_name": "LTE1", "gene_names_uniprotkb": "LTE1; EIS4; MSI2", "gene_names_refseq": "LTE1; MSI2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07866", "url": "https://www.uniprot.org/uniprotkb/P07866" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DVASPMKNVEELKSKFLKNE", "down_seq": "ETNSNISGSVLTMDDIDIND", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000022", "url": "https://www.yeastgenome.org/locus/S000000022" }, { "database": "iPTMnet", "id": "P07866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07866" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser996" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "317", "end_pos": "317" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1028", "end_pos": "1028" }, { "start_pos": "1030", "end_pos": "1030" }, { "start_pos": "1033", "end_pos": "1033" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1080", "end_pos": "1080" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1116", "end_pos": "1116" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "1132", "end_pos": "1132" }, { "start_pos": "1136", "end_pos": "1136" }, { "start_pos": "1145", "end_pos": "1145" }, { "start_pos": "1176", "end_pos": "1176" }, { "start_pos": "1340", "end_pos": "1340" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "585", "end_pos": "585" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "628", "end_pos": "628" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "643", "end_pos": "643" }, { "start_pos": "654", "end_pos": "654" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "717", "end_pos": "717" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "745", "end_pos": "745" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "755", "end_pos": "755" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "789", "end_pos": "789" }, { "start_pos": "793", "end_pos": "793" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "799", "end_pos": "799" }, { "start_pos": "808", "end_pos": "808" }, { "start_pos": "810", "end_pos": "810" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "934", "end_pos": "934" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "937", "end_pos": "937" }, { "start_pos": "938", "end_pos": "938" }, { "start_pos": "944", "end_pos": "944" }, { "start_pos": "948", "end_pos": "948" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "956", "end_pos": "956" }, { "start_pos": "958", "end_pos": "958" }, { "start_pos": "959", "end_pos": "959" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "979", "end_pos": "979" }, { "start_pos": "996", "end_pos": "996" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P07866-1.979.979", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07991-1.298.298", "start_pos": 298, "end_pos": 298, "uniprot_canonical_ac": "P07991-1", "length": 424, "uniprot_id": "OAT_YEAST", "protein_name": "Ornithine aminotransferase", "refseq_ac": "NP_013542", "refseq_name": "ornithine-oxo-acid transaminase", "gene_name": "CAR2", "gene_names_uniprotkb": "CAR2; CARGB; L9753.2", "gene_names_refseq": "CAR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07991", "url": "https://www.uniprot.org/uniprotkb/P07991" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P07991", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07991" } ], "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": "P07991", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07991" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004430", "url": "https://www.yeastgenome.org/locus/S000004430", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07991", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07991", "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": "VLPVSCVLSSHDIMSCFTPG", "down_seq": "HGSTFGGNPLASRVAIAALE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004430", "url": "https://www.yeastgenome.org/locus/S000004430" }, { "database": "iPTMnet", "id": "P07991", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07991" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser298" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07991-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P07991-1", "length": 424, "uniprot_id": "OAT_YEAST", "protein_name": "Ornithine aminotransferase", "refseq_ac": "NP_013542", "refseq_name": "ornithine-oxo-acid transaminase", "gene_name": "CAR2", "gene_names_uniprotkb": "CAR2; CARGB; L9753.2", "gene_names_refseq": "CAR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07991", "url": "https://www.uniprot.org/uniprotkb/P07991" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07991", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07991" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004430", "url": "https://www.yeastgenome.org/locus/S000004430", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07991", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07991", "database": "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": "EATLSSKQTIEWENKYSAHN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004430", "url": "https://www.yeastgenome.org/locus/S000004430" }, { "database": "iPTMnet", "id": "P07991", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07991" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07991-1.334.334", "start_pos": 334, "end_pos": 334, "uniprot_canonical_ac": "P07991-1", "length": 424, "uniprot_id": "OAT_YEAST", "protein_name": "Ornithine aminotransferase", "refseq_ac": "NP_013542", "refseq_name": "ornithine-oxo-acid transaminase", "gene_name": "CAR2", "gene_names_uniprotkb": "CAR2; CARGB; L9753.2", "gene_names_refseq": "CAR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07991", "url": "https://www.uniprot.org/uniprotkb/P07991" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07991", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07991" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004430", "url": "https://www.yeastgenome.org/locus/S000004430", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07991", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07991", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IAALEVIRDEKLCQRAAQLG", "down_seq": "SFIAQLKALQAKSNGIISEV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004430", "url": "https://www.yeastgenome.org/locus/S000004430" }, { "database": "iPTMnet", "id": "P07991", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07991" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser334" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P07991-1.79.79", "start_pos": 79, "end_pos": 79, "uniprot_canonical_ac": "P07991-1", "length": 424, "uniprot_id": "OAT_YEAST", "protein_name": "Ornithine aminotransferase", "refseq_ac": "NP_013542", "refseq_name": "ornithine-oxo-acid transaminase", "gene_name": "CAR2", "gene_names_uniprotkb": "CAR2; CARGB; L9753.2", "gene_names_refseq": "CAR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P07991", "url": "https://www.uniprot.org/uniprotkb/P07991" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P07991", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07991" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004430", "url": "https://www.yeastgenome.org/locus/S000004430", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P07991", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07991", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GHCHPHIIKALTEQAQTLTL", "down_seq": "SRAFHNDVYAQFAKFVTEFF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004430", "url": "https://www.yeastgenome.org/locus/S000004430" }, { "database": "iPTMnet", "id": "P07991", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P07991" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser79" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P08004-1.1078.1078", "start_pos": 1078, "end_pos": 1078, "uniprot_canonical_ac": "P08004-1", "length": 1131, "uniprot_id": "CHS1_YEAST", "protein_name": "Chitin synthase 1", "refseq_ac": "NP_014207", "refseq_name": "chitin synthase CHS1", "gene_name": "CHS1", "gene_names_uniprotkb": "CHS1; N1404", "gene_names_refseq": "CHS1; USA4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004", "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": "VLETGGIADYIAMKSISTDD", "down_seq": "LETAKKAEIPLMTSKASIYF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr1078" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1081", "end_pos": "1081" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "984", "end_pos": "984" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P08004-1.1081.1081", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P08004-1.1081.1081", "start_pos": 1081, "end_pos": 1081, "uniprot_canonical_ac": "P08004-1", "length": 1131, "uniprot_id": "CHS1_YEAST", "protein_name": "Chitin synthase 1", "refseq_ac": "NP_014207", "refseq_name": "chitin synthase CHS1", "gene_name": "CHS1", "gene_names_uniprotkb": "CHS1; N1404", "gene_names_refseq": "CHS1; USA4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004", "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": "TGGIADYIAMKSISTDDTLE", "down_seq": "AKKAEIPLMTSKASIYFNVI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr1081" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1081", "end_pos": "1081" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "984", "end_pos": "984" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P08004-1.1078.1078", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P08004-1.180.180", "start_pos": 180, "end_pos": 180, "uniprot_canonical_ac": "P08004-1", "length": 1131, "uniprot_id": "CHS1_YEAST", "protein_name": "Chitin synthase 1", "refseq_ac": "NP_014207", "refseq_name": "chitin synthase CHS1", "gene_name": "CHS1", "gene_names_uniprotkb": "CHS1; N1404", "gene_names_refseq": "CHS1; USA4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004", "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": "IERPFFNENDYYYNNRNSRT", "down_seq": "PSIASSSDGYADQEARPILE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser180" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1081", "end_pos": "1081" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "984", "end_pos": "984" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P08004-1.182.182", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P08004-1.185.185", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P08004-1.186.186", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P08004-1.187.187", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P08004-1.190.190", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P08004-1.182.182", "start_pos": 182, "end_pos": 182, "uniprot_canonical_ac": "P08004-1", "length": 1131, "uniprot_id": "CHS1_YEAST", "protein_name": "Chitin synthase 1", "refseq_ac": "NP_014207", "refseq_name": "chitin synthase CHS1", "gene_name": "CHS1", "gene_names_uniprotkb": "CHS1; N1404", "gene_names_refseq": "CHS1; USA4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004", "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": "RPFFNENDYYYNNRNSRTSP", "down_seq": "IASSSDGYADQEARPILEQP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser182" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1081", "end_pos": "1081" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "984", "end_pos": "984" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P08004-1.180.180", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P08004-1.185.185", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P08004-1.186.186", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P08004-1.187.187", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P08004-1.190.190", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P08004-1.185.185", "start_pos": 185, "end_pos": 185, "uniprot_canonical_ac": "P08004-1", "length": 1131, "uniprot_id": "CHS1_YEAST", "protein_name": "Chitin synthase 1", "refseq_ac": "NP_014207", "refseq_name": "chitin synthase CHS1", "gene_name": "CHS1", "gene_names_uniprotkb": "CHS1; N1404", "gene_names_refseq": "CHS1; USA4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004", "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": "FNENDYYYNNRNSRTSPSIA", "down_seq": "SSDGYADQEARPILEQPNNN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser185" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1081", "end_pos": "1081" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "984", "end_pos": "984" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P08004-1.180.180", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P08004-1.182.182", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P08004-1.186.186", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P08004-1.187.187", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P08004-1.190.190", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P08004-1.186.186", "start_pos": 186, "end_pos": 186, "uniprot_canonical_ac": "P08004-1", "length": 1131, "uniprot_id": "CHS1_YEAST", "protein_name": "Chitin synthase 1", "refseq_ac": "NP_014207", "refseq_name": "chitin synthase CHS1", "gene_name": "CHS1", "gene_names_uniprotkb": "CHS1; N1404", "gene_names_refseq": "CHS1; USA4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004", "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": "NENDYYYNNRNSRTSPSIAS", "down_seq": "SDGYADQEARPILEQPNNNM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser186" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1081", "end_pos": "1081" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "984", "end_pos": "984" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P08004-1.180.180", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P08004-1.182.182", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P08004-1.185.185", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P08004-1.187.187", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P08004-1.190.190", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P08004-1.187.187", "start_pos": 187, "end_pos": 187, "uniprot_canonical_ac": "P08004-1", "length": 1131, "uniprot_id": "CHS1_YEAST", "protein_name": "Chitin synthase 1", "refseq_ac": "NP_014207", "refseq_name": "chitin synthase CHS1", "gene_name": "CHS1", "gene_names_uniprotkb": "CHS1; N1404", "gene_names_refseq": "CHS1; USA4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004", "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": "ENDYYYNNRNSRTSPSIASS", "down_seq": "DGYADQEARPILEQPNNNMN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" }, { "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": "1078", "end_pos": "1078" }, { "start_pos": "1081", "end_pos": "1081" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "984", "end_pos": "984" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P08004-1.180.180", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P08004-1.182.182", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P08004-1.185.185", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P08004-1.186.186", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P08004-1.190.190", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P08004-1.190.190", "start_pos": 190, "end_pos": 190, "uniprot_canonical_ac": "P08004-1", "length": 1131, "uniprot_id": "CHS1_YEAST", "protein_name": "Chitin synthase 1", "refseq_ac": "NP_014207", "refseq_name": "chitin synthase CHS1", "gene_name": "CHS1", "gene_names_uniprotkb": "CHS1; N1404", "gene_names_refseq": "CHS1; USA4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004", "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": "YYYNNRNSRTSPSIASSSDG", "down_seq": "ADQEARPILEQPNNNMNSGN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Tyr190" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1081", "end_pos": "1081" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "984", "end_pos": "984" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P08004-1.180.180", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P08004-1.182.182", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P08004-1.185.185", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P08004-1.186.186", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P08004-1.187.187", "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": "P08004-1.253.253", "start_pos": 253, "end_pos": 253, "uniprot_canonical_ac": "P08004-1", "length": 1131, "uniprot_id": "CHS1_YEAST", "protein_name": "Chitin synthase 1", "refseq_ac": "NP_014207", "refseq_name": "chitin synthase CHS1", "gene_name": "CHS1", "gene_names_uniprotkb": "CHS1; N1404", "gene_names_refseq": "CHS1; USA4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004", "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": "YYDDPEGGYIDQRGDDYQIN", "down_seq": "YLGRNGEMVDPYDYENSLRH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser253" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1081", "end_pos": "1081" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "984", "end_pos": "984" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "upstream", "id": "P08004-1.270.270", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P08004-1.270.270", "start_pos": 270, "end_pos": 270, "uniprot_canonical_ac": "P08004-1", "length": 1131, "uniprot_id": "CHS1_YEAST", "protein_name": "Chitin synthase 1", "refseq_ac": "NP_014207", "refseq_name": "chitin synthase CHS1", "gene_name": "CHS1", "gene_names_uniprotkb": "CHS1; N1404", "gene_names_refseq": "CHS1; USA4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" } ], "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": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "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": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "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": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "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": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "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": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "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": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "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": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004", "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": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136", "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": "QINSYLGRNGEMVDPYDYEN", "down_seq": "LRHMTPMERREYLHDDSRPV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" }, { "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": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136" }, { "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": "Ser270" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1081", "end_pos": "1081" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "984", "end_pos": "984" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P08004-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P08004-1.275.275", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P08004-1.287.287", "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": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P08004-1.275.275", "start_pos": 275, "end_pos": 275, "uniprot_canonical_ac": "P08004-1", "length": 1131, "uniprot_id": "CHS1_YEAST", "protein_name": "Chitin synthase 1", "refseq_ac": "NP_014207", "refseq_name": "chitin synthase CHS1", "gene_name": "CHS1", "gene_names_uniprotkb": "CHS1; N1404", "gene_names_refseq": "CHS1; USA4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "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": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004", "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": "LGRNGEMVDPYDYENSLRHM", "down_seq": "PMERREYLHDDSRPVNDGKE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" }, { "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": "Thr275" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1081", "end_pos": "1081" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "984", "end_pos": "984" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P08004-1.270.270", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P08004-1.287.287", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P08004-1.287.287", "start_pos": 287, "end_pos": 287, "uniprot_canonical_ac": "P08004-1", "length": 1131, "uniprot_id": "CHS1_YEAST", "protein_name": "Chitin synthase 1", "refseq_ac": "NP_014207", "refseq_name": "chitin synthase CHS1", "gene_name": "CHS1", "gene_names_uniprotkb": "CHS1; N1404", "gene_names_refseq": "CHS1; USA4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YENSLRHMTPMERREYLHDD", "down_seq": "RPVNDGKEELDSVKSGYSHR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser287" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1081", "end_pos": "1081" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "984", "end_pos": "984" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P08004-1.270.270", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P08004-1.275.275", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P08004-1.299.299", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P08004-1.302.302", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P08004-1.305.305", "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": "P08004-1.299.299", "start_pos": 299, "end_pos": 299, "uniprot_canonical_ac": "P08004-1", "length": 1131, "uniprot_id": "CHS1_YEAST", "protein_name": "Chitin synthase 1", "refseq_ac": "NP_014207", "refseq_name": "chitin synthase CHS1", "gene_name": "CHS1", "gene_names_uniprotkb": "CHS1; N1404", "gene_names_refseq": "CHS1; USA4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" } ], "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": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "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": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "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": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "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": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136", "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": "RREYLHDDSRPVNDGKEELD", "down_seq": "VKSGYSHRDLGEYDKDDFSR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136" }, { "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": "Ser299" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1081", "end_pos": "1081" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "984", "end_pos": "984" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P08004-1.287.287", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P08004-1.302.302", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P08004-1.305.305", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P08004-1.318.318", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P08004-1.29.29", "start_pos": 29, "end_pos": 29, "uniprot_canonical_ac": "P08004-1", "length": 1131, "uniprot_id": "CHS1_YEAST", "protein_name": "Chitin synthase 1", "refseq_ac": "NP_014207", "refseq_name": "chitin synthase CHS1", "gene_name": "CHS1", "gene_names_uniprotkb": "CHS1; N1404", "gene_names_refseq": "CHS1; USA4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "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": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136", "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": "RNEYHSNRKNEPSYELQNAH", "down_seq": "GLFHSSNEELTNRNQRYTNQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser29" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1081", "end_pos": "1081" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "984", "end_pos": "984" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P08004-1.34.34", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P08004-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P08004-1.40.40", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P08004-1.302.302", "start_pos": 302, "end_pos": 302, "uniprot_canonical_ac": "P08004-1", "length": 1131, "uniprot_id": "CHS1_YEAST", "protein_name": "Chitin synthase 1", "refseq_ac": "NP_014207", "refseq_name": "chitin synthase CHS1", "gene_name": "CHS1", "gene_names_uniprotkb": "CHS1; N1404", "gene_names_refseq": "CHS1; USA4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004", "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": "YLHDDSRPVNDGKEELDSVK", "down_seq": "GYSHRDLGEYDKDDFSRDDE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser302" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1081", "end_pos": "1081" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "984", "end_pos": "984" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P08004-1.287.287", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P08004-1.299.299", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P08004-1.305.305", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P08004-1.318.318", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P08004-1.305.305", "start_pos": 305, "end_pos": 305, "uniprot_canonical_ac": "P08004-1", "length": 1131, "uniprot_id": "CHS1_YEAST", "protein_name": "Chitin synthase 1", "refseq_ac": "NP_014207", "refseq_name": "chitin synthase CHS1", "gene_name": "CHS1", "gene_names_uniprotkb": "CHS1; N1404", "gene_names_refseq": "CHS1; USA4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" } ], "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": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "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": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136", "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": "DDSRPVNDGKEELDSVKSGY", "down_seq": "HRDLGEYDKDDFSRDDEYDD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "SGD", "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser305" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1081", "end_pos": "1081" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "984", "end_pos": "984" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P08004-1.287.287", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P08004-1.299.299", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P08004-1.302.302", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P08004-1.318.318", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P08004-1.323.323", "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": "P08004-1.318.318", "start_pos": 318, "end_pos": 318, "uniprot_canonical_ac": "P08004-1", "length": 1131, "uniprot_id": "CHS1_YEAST", "protein_name": "Chitin synthase 1", "refseq_ac": "NP_014207", "refseq_name": "chitin synthase CHS1", "gene_name": "CHS1", "gene_names_uniprotkb": "CHS1; N1404", "gene_names_refseq": "CHS1; USA4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" } ], "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": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "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": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "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": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136", "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": "DSVKSGYSHRDLGEYDKDDF", "down_seq": "RDDEYDDLNTIDKLQFQANG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser318" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1081", "end_pos": "1081" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "984", "end_pos": "984" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P08004-1.299.299", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P08004-1.302.302", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P08004-1.305.305", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P08004-1.323.323", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P08004-1.328.328", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P08004-1.323.323", "start_pos": 323, "end_pos": 323, "uniprot_canonical_ac": "P08004-1", "length": 1131, "uniprot_id": "CHS1_YEAST", "protein_name": "Chitin synthase 1", "refseq_ac": "NP_014207", "refseq_name": "chitin synthase CHS1", "gene_name": "CHS1", "gene_names_uniprotkb": "CHS1; N1404", "gene_names_refseq": "CHS1; USA4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004", "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": "GYSHRDLGEYDKDDFSRDDE", "down_seq": "DDLNTIDKLQFQANGVPASS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Tyr323" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1081", "end_pos": "1081" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "984", "end_pos": "984" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P08004-1.305.305", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P08004-1.318.318", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P08004-1.328.328", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P08004-1.328.328", "start_pos": 328, "end_pos": 328, "uniprot_canonical_ac": "P08004-1", "length": 1131, "uniprot_id": "CHS1_YEAST", "protein_name": "Chitin synthase 1", "refseq_ac": "NP_014207", "refseq_name": "chitin synthase CHS1", "gene_name": "CHS1", "gene_names_uniprotkb": "CHS1; N1404", "gene_names_refseq": "CHS1; USA4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" } ], "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": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "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": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "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": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136", "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": "DLGEYDKDDFSRDDEYDDLN", "down_seq": "IDKLQFQANGVPASSSVSSI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr328" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1081", "end_pos": "1081" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "984", "end_pos": "984" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P08004-1.318.318", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P08004-1.323.323", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P08004-1.34.34", "start_pos": 34, "end_pos": 34, "uniprot_canonical_ac": "P08004-1", "length": 1131, "uniprot_id": "CHS1_YEAST", "protein_name": "Chitin synthase 1", "refseq_ac": "NP_014207", "refseq_name": "chitin synthase CHS1", "gene_name": "CHS1", "gene_names_uniprotkb": "CHS1; N1404", "gene_names_refseq": "CHS1; USA4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "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": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "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": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "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": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "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": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004", "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": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136", "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": "SNRKNEPSYELQNAHSGLFH", "down_seq": "SNEELTNRNQRYTNQNASMG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" }, { "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": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" }, { "database": "SGD", "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136" }, { "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": "Ser34" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1081", "end_pos": "1081" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "984", "end_pos": "984" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P08004-1.29.29", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P08004-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P08004-1.40.40", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P08004-1.358.358", "start_pos": 358, "end_pos": 358, "uniprot_canonical_ac": "P08004-1", "length": 1131, "uniprot_id": "CHS1_YEAST", "protein_name": "Chitin synthase 1", "refseq_ac": "NP_014207", "refseq_name": "chitin synthase CHS1", "gene_name": "CHS1", "gene_names_uniprotkb": "CHS1; N1404", "gene_names_refseq": "CHS1; USA4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" } ], "common_name": "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": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "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": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "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": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004", "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": "GVPASSSVSSIGSKESDIIV", "down_seq": "NDNLTANRALKRSGTEIRKF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser358" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1081", "end_pos": "1081" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "984", "end_pos": "984" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P08004-1.363.363", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P08004-1.371.371", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P08004-1.373.373", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P08004-1.35.35", "start_pos": 35, "end_pos": 35, "uniprot_canonical_ac": "P08004-1", "length": 1131, "uniprot_id": "CHS1_YEAST", "protein_name": "Chitin synthase 1", "refseq_ac": "NP_014207", "refseq_name": "chitin synthase CHS1", "gene_name": "CHS1", "gene_names_uniprotkb": "CHS1; N1404", "gene_names_refseq": "CHS1; USA4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "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": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "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": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "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": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "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": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136", "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": "NRKNEPSYELQNAHSGLFHS", "down_seq": "NEELTNRNQRYTNQNASMGS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "SGD", "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136" }, { "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": "Ser35" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1081", "end_pos": "1081" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "984", "end_pos": "984" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P08004-1.29.29", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P08004-1.34.34", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P08004-1.40.40", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P08004-1.363.363", "start_pos": 363, "end_pos": 363, "uniprot_canonical_ac": "P08004-1", "length": 1131, "uniprot_id": "CHS1_YEAST", "protein_name": "Chitin synthase 1", "refseq_ac": "NP_014207", "refseq_name": "chitin synthase CHS1", "gene_name": "CHS1", "gene_names_uniprotkb": "CHS1; N1404", "gene_names_refseq": "CHS1; USA4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" } ], "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": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004", "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": "SSVSSIGSKESDIIVSNDNL", "down_seq": "ANRALKRSGTEIRKFKLWNG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Thr363" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1081", "end_pos": "1081" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "984", "end_pos": "984" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P08004-1.358.358", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P08004-1.371.371", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P08004-1.373.373", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P08004-1.371.371", "start_pos": 371, "end_pos": 371, "uniprot_canonical_ac": "P08004-1", "length": 1131, "uniprot_id": "CHS1_YEAST", "protein_name": "Chitin synthase 1", "refseq_ac": "NP_014207", "refseq_name": "chitin synthase CHS1", "gene_name": "CHS1", "gene_names_uniprotkb": "CHS1; N1404", "gene_names_refseq": "CHS1; USA4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KESDIIVSNDNLTANRALKR", "down_seq": "GTEIRKFKLWNGNFVFDSPI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser371" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1081", "end_pos": "1081" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "984", "end_pos": "984" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P08004-1.358.358", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P08004-1.363.363", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P08004-1.373.373", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P08004-1.373.373", "start_pos": 373, "end_pos": 373, "uniprot_canonical_ac": "P08004-1", "length": 1131, "uniprot_id": "CHS1_YEAST", "protein_name": "Chitin synthase 1", "refseq_ac": "NP_014207", "refseq_name": "chitin synthase CHS1", "gene_name": "CHS1", "gene_names_uniprotkb": "CHS1; N1404", "gene_names_refseq": "CHS1; USA4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004", "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": "SDIIVSNDNLTANRALKRSG", "down_seq": "EIRKFKLWNGNFVFDSPISK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr373" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1081", "end_pos": "1081" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "984", "end_pos": "984" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P08004-1.358.358", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P08004-1.363.363", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P08004-1.371.371", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P08004-1.40.40", "start_pos": 40, "end_pos": 40, "uniprot_canonical_ac": "P08004-1", "length": 1131, "uniprot_id": "CHS1_YEAST", "protein_name": "Chitin synthase 1", "refseq_ac": "NP_014207", "refseq_name": "chitin synthase CHS1", "gene_name": "CHS1", "gene_names_uniprotkb": "CHS1; N1404", "gene_names_refseq": "CHS1; USA4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" } ], "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": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "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": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "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": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004", "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": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136", "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": "PSYELQNAHSGLFHSSNEEL", "down_seq": "NRNQRYTNQNASMGSFTPVQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" }, { "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": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Thr40" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1081", "end_pos": "1081" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "984", "end_pos": "984" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P08004-1.29.29", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P08004-1.34.34", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P08004-1.35.35", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P08004-1.984.984", "start_pos": 984, "end_pos": 984, "uniprot_canonical_ac": "P08004-1", "length": 1131, "uniprot_id": "CHS1_YEAST", "protein_name": "Chitin synthase 1", "refseq_ac": "NP_014207", "refseq_name": "chitin synthase CHS1", "gene_name": "CHS1", "gene_names_uniprotkb": "CHS1; N1404", "gene_names_refseq": "CHS1; USA4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08004", "url": "https://www.uniprot.org/uniprotkb/P08004" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004", "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": "VHDLSWGTKGAMANPLGKIN", "down_seq": "TEDGTFKMEVLVSSSEIQAN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005136", "url": "https://www.yeastgenome.org/locus/S000005136" }, { "database": "iPTMnet", "id": "P08004", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08004" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr984" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1078", "end_pos": "1078" }, { "start_pos": "1081", "end_pos": "1081" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "984", "end_pos": "984" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P08018-1.111.111", "start_pos": 111, "end_pos": 111, "uniprot_canonical_ac": "P08018-1", "length": 668, "uniprot_id": "PBS2_YEAST", "protein_name": "MAP kinase kinase PBS2", "refseq_ac": "NP_012407", "refseq_name": "mitogen-activated protein kinase kinase PBS2", "gene_name": "PBS2", "gene_names_uniprotkb": "PBS2; HOG4; J0699; SFS4; SSK4", "gene_names_refseq": "HOG4; PBS2; SFS4; SSK4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08018", "url": "https://www.uniprot.org/uniprotkb/P08018" } ], "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": "P08018", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P08018" }, { "database": "O-GlcNAc Atlas", "id": "P08018", "url": "https://oglcnac.org/atlas/detail/P08018" } ], "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": "P08018", "url": "https://oglcnac.org/atlas/detail/P08018", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VNKPLPPLPVAGSSKVSQRM", "down_seq": "SQVVQASSKSTLKNVLDNQE", "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": "Ser111", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P08018", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P08018" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "389", "end_pos": "389" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "96", "end_pos": "96" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P08018-1.96.96", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P08018-1.112.112", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P08018-1.118.118", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P08018-1.119.119", "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": "P08018-1.112.112", "start_pos": 112, "end_pos": 112, "uniprot_canonical_ac": "P08018-1", "length": 668, "uniprot_id": "PBS2_YEAST", "protein_name": "MAP kinase kinase PBS2", "refseq_ac": "NP_012407", "refseq_name": "mitogen-activated protein kinase kinase PBS2", "gene_name": "PBS2", "gene_names_uniprotkb": "PBS2; HOG4; J0699; SFS4; SSK4", "gene_names_refseq": "HOG4; PBS2; SFS4; SSK4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08018", "url": "https://www.uniprot.org/uniprotkb/P08018" } ], "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": "P08018", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P08018" }, { "database": "O-GlcNAc Atlas", "id": "P08018", "url": "https://oglcnac.org/atlas/detail/P08018" } ], "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": "P08018", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08018" } ], "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": "P08018", "url": "https://oglcnac.org/atlas/detail/P08018", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000003664", "url": "https://www.yeastgenome.org/locus/S000003664", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P08018", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08018", "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": "NKPLPPLPVAGSSKVSQRMS", "down_seq": "QVVQASSKSTLKNVLDNQET", "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": "Ser112", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P08018", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P08018" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003664", "url": "https://www.yeastgenome.org/locus/S000003664" }, { "database": "iPTMnet", "id": "P08018", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P08018" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser112" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "389", "end_pos": "389" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "96", "end_pos": "96" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P08018-1.96.96", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P08018-1.111.111", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P08018-1.118.118", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P08018-1.119.119", "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": "P08018-1.118.118", "start_pos": 118, "end_pos": 118, "uniprot_canonical_ac": "P08018-1", "length": 668, "uniprot_id": "PBS2_YEAST", "protein_name": "MAP kinase kinase PBS2", "refseq_ac": "NP_012407", "refseq_name": "mitogen-activated protein kinase kinase PBS2", "gene_name": "PBS2", "gene_names_uniprotkb": "PBS2; HOG4; J0699; SFS4; SSK4", "gene_names_refseq": "HOG4; PBS2; SFS4; SSK4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08018", "url": "https://www.uniprot.org/uniprotkb/P08018" } ], "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": "P08018", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P08018" }, { "database": "O-GlcNAc Atlas", "id": "P08018", "url": "https://oglcnac.org/atlas/detail/P08018" } ], "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": "P08018", "url": "https://oglcnac.org/atlas/detail/P08018", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LPVAGSSKVSQRMSSQVVQA", "down_seq": "SKSTLKNVLDNQETQNITDV", "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": "Ser118", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P08018", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P08018" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "389", "end_pos": "389" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "96", "end_pos": "96" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P08018-1.111.111", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P08018-1.112.112", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P08018-1.119.119", "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": "P08018-1.119.119", "start_pos": 119, "end_pos": 119, "uniprot_canonical_ac": "P08018-1", "length": 668, "uniprot_id": "PBS2_YEAST", "protein_name": "MAP kinase kinase PBS2", "refseq_ac": "NP_012407", "refseq_name": "mitogen-activated protein kinase kinase PBS2", "gene_name": "PBS2", "gene_names_uniprotkb": "PBS2; HOG4; J0699; SFS4; SSK4", "gene_names_refseq": "HOG4; PBS2; SFS4; SSK4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08018", "url": "https://www.uniprot.org/uniprotkb/P08018" } ], "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": "P08018", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P08018" }, { "database": "O-GlcNAc Atlas", "id": "P08018", "url": "https://oglcnac.org/atlas/detail/P08018" } ], "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": "P08018", "url": "https://oglcnac.org/atlas/detail/P08018", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PVAGSSKVSQRMSSQVVQAS", "down_seq": "KSTLKNVLDNQETQNITDVN", "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": "Ser119", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P08018", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P08018" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "389", "end_pos": "389" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "96", "end_pos": "96" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P08018-1.111.111", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P08018-1.112.112", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P08018-1.118.118", "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": "P08018-1.148.148", "start_pos": 148, "end_pos": 148, "uniprot_canonical_ac": "P08018-1", "length": 668, "uniprot_id": "PBS2_YEAST", "protein_name": "MAP kinase kinase PBS2", "refseq_ac": "NP_012407", "refseq_name": "mitogen-activated protein kinase kinase PBS2", "gene_name": "PBS2", "gene_names_uniprotkb": "PBS2; HOG4; J0699; SFS4; SSK4", "gene_names_refseq": "HOG4; PBS2; SFS4; SSK4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08018", "url": "https://www.uniprot.org/uniprotkb/P08018" } ], "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": "P08018", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P08018" }, { "database": "O-GlcNAc Atlas", "id": "P08018", "url": "https://oglcnac.org/atlas/detail/P08018" } ], "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": "P08018", "url": "https://oglcnac.org/atlas/detail/P08018", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "DNQETQNITDVNINIDTTKI", "down_seq": "ATTIGVNTGLPATDITPSVS", "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": "Thr148", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P08018", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P08018" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "389", "end_pos": "389" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "96", "end_pos": "96" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P08018-1.150.150", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P08018-1.151.151", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P08018-1.156.156", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P08018-1.161.161", "categories": [ "glycosylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P08018-1.166.166", "categories": [ "glycosylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P08018-1.168.168", "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": "P08018-1.150.150", "start_pos": 150, "end_pos": 150, "uniprot_canonical_ac": "P08018-1", "length": 668, "uniprot_id": "PBS2_YEAST", "protein_name": "MAP kinase kinase PBS2", "refseq_ac": "NP_012407", "refseq_name": "mitogen-activated protein kinase kinase PBS2", "gene_name": "PBS2", "gene_names_uniprotkb": "PBS2; HOG4; J0699; SFS4; SSK4", "gene_names_refseq": "HOG4; PBS2; SFS4; SSK4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08018", "url": "https://www.uniprot.org/uniprotkb/P08018" } ], "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": "P08018", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P08018" }, { "database": "O-GlcNAc Atlas", "id": "P08018", "url": "https://oglcnac.org/atlas/detail/P08018" } ], "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": "P08018", "url": "https://oglcnac.org/atlas/detail/P08018", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "QETQNITDVNINIDTTKITA", "down_seq": "TIGVNTGLPATDITPSVSNT", "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": "Thr150", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P08018", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P08018" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "389", "end_pos": "389" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "96", "end_pos": "96" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P08018-1.148.148", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P08018-1.151.151", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P08018-1.156.156", "categories": [ "glycosylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P08018-1.161.161", "categories": [ "glycosylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P08018-1.166.166", "categories": [ "glycosylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P08018-1.168.168", "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": "P08018-1.151.151", "start_pos": 151, "end_pos": 151, "uniprot_canonical_ac": "P08018-1", "length": 668, "uniprot_id": "PBS2_YEAST", "protein_name": "MAP kinase kinase PBS2", "refseq_ac": "NP_012407", "refseq_name": "mitogen-activated protein kinase kinase PBS2", "gene_name": "PBS2", "gene_names_uniprotkb": "PBS2; HOG4; J0699; SFS4; SSK4", "gene_names_refseq": "HOG4; PBS2; SFS4; SSK4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08018", "url": "https://www.uniprot.org/uniprotkb/P08018" } ], "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": "P08018", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P08018" }, { "database": "O-GlcNAc Atlas", "id": "P08018", "url": "https://oglcnac.org/atlas/detail/P08018" } ], "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": "P08018", "url": "https://oglcnac.org/atlas/detail/P08018", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "ETQNITDVNINIDTTKITAT", "down_seq": "IGVNTGLPATDITPSVSNTA", "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": "Thr151", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P08018", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P08018" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "389", "end_pos": "389" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "96", "end_pos": "96" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P08018-1.148.148", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P08018-1.150.150", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P08018-1.156.156", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P08018-1.161.161", "categories": [ "glycosylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P08018-1.166.166", "categories": [ "glycosylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P08018-1.168.168", "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": "P08018-1.156.156", "start_pos": 156, "end_pos": 156, "uniprot_canonical_ac": "P08018-1", "length": 668, "uniprot_id": "PBS2_YEAST", "protein_name": "MAP kinase kinase PBS2", "refseq_ac": "NP_012407", "refseq_name": "mitogen-activated protein kinase kinase PBS2", "gene_name": "PBS2", "gene_names_uniprotkb": "PBS2; HOG4; J0699; SFS4; SSK4", "gene_names_refseq": "HOG4; PBS2; SFS4; SSK4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08018", "url": "https://www.uniprot.org/uniprotkb/P08018" } ], "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": "P08018", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P08018" }, { "database": "O-GlcNAc Atlas", "id": "P08018", "url": "https://oglcnac.org/atlas/detail/P08018" } ], "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": "P08018", "url": "https://oglcnac.org/atlas/detail/P08018", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "TDVNINIDTTKITATTIGVN", "down_seq": "GLPATDITPSVSNTASATHK", "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": "Thr156", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P08018", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P08018" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "389", "end_pos": "389" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "96", "end_pos": "96" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P08018-1.148.148", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P08018-1.150.150", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P08018-1.151.151", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P08018-1.161.161", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P08018-1.166.166", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P08018-1.168.168", "categories": [ "glycosylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P08018-1.172.172", "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": "P08018-1.161.161", "start_pos": 161, "end_pos": 161, "uniprot_canonical_ac": "P08018-1", "length": 668, "uniprot_id": "PBS2_YEAST", "protein_name": "MAP kinase kinase PBS2", "refseq_ac": "NP_012407", "refseq_name": "mitogen-activated protein kinase kinase PBS2", "gene_name": "PBS2", "gene_names_uniprotkb": "PBS2; HOG4; J0699; SFS4; SSK4", "gene_names_refseq": "HOG4; PBS2; SFS4; SSK4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08018", "url": "https://www.uniprot.org/uniprotkb/P08018" } ], "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": "P08018", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P08018" }, { "database": "O-GlcNAc Atlas", "id": "P08018", "url": "https://oglcnac.org/atlas/detail/P08018" } ], "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": "P08018", "url": "https://oglcnac.org/atlas/detail/P08018", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "NIDTTKITATTIGVNTGLPA", "down_seq": "DITPSVSNTASATHKAQLLN", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "T", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Thr", "end_aa": "Thr", "residue": "Thr", "site_lbl": "Thr161", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P08018", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P08018" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "389", "end_pos": "389" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "96", "end_pos": "96" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P08018-1.148.148", "categories": [ "glycosylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P08018-1.150.150", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P08018-1.151.151", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P08018-1.156.156", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P08018-1.166.166", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P08018-1.168.168", "categories": [ "glycosylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P08018-1.172.172", "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": "P08018-1.166.166", "start_pos": 166, "end_pos": 166, "uniprot_canonical_ac": "P08018-1", "length": 668, "uniprot_id": "PBS2_YEAST", "protein_name": "MAP kinase kinase PBS2", "refseq_ac": "NP_012407", "refseq_name": "mitogen-activated protein kinase kinase PBS2", "gene_name": "PBS2", "gene_names_uniprotkb": "PBS2; HOG4; J0699; SFS4; SSK4", "gene_names_refseq": "HOG4; PBS2; SFS4; SSK4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08018", "url": "https://www.uniprot.org/uniprotkb/P08018" } ], "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": "P08018", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P08018" }, { "database": "O-GlcNAc Atlas", "id": "P08018", "url": "https://oglcnac.org/atlas/detail/P08018" } ], "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": "P08018", "url": "https://oglcnac.org/atlas/detail/P08018", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KITATTIGVNTGLPATDITP", "down_seq": "VSNTASATHKAQLLNPNRRA", "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": "Ser166", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P08018", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P08018" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "389", "end_pos": "389" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "96", "end_pos": "96" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P08018-1.148.148", "categories": [ "glycosylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P08018-1.150.150", "categories": [ "glycosylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P08018-1.151.151", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P08018-1.156.156", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P08018-1.161.161", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P08018-1.168.168", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P08018-1.172.172", "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": "P08018-1.168.168", "start_pos": 168, "end_pos": 168, "uniprot_canonical_ac": "P08018-1", "length": 668, "uniprot_id": "PBS2_YEAST", "protein_name": "MAP kinase kinase PBS2", "refseq_ac": "NP_012407", "refseq_name": "mitogen-activated protein kinase kinase PBS2", "gene_name": "PBS2", "gene_names_uniprotkb": "PBS2; HOG4; J0699; SFS4; SSK4", "gene_names_refseq": "HOG4; PBS2; SFS4; SSK4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P08018", "url": "https://www.uniprot.org/uniprotkb/P08018" } ], "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": "P08018", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P08018" }, { "database": "O-GlcNAc Atlas", "id": "P08018", "url": "https://oglcnac.org/atlas/detail/P08018" } ], "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": "P08018", "url": "https://oglcnac.org/atlas/detail/P08018", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TATTIGVNTGLPATDITPSV", "down_seq": "NTASATHKAQLLNPNRRAPR", "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": "Ser168", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P08018", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P08018" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "389", "end_pos": "389" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "96", "end_pos": "96" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P08018-1.148.148", "categories": [ "glycosylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P08018-1.150.150", "categories": [ "glycosylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P08018-1.151.151", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P08018-1.156.156", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P08018-1.161.161", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P08018-1.166.166", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P08018-1.172.172", "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" ] } ] } ]